Nfasc (neurofascin) - Rat Genome Database

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Gene: Nfasc (neurofascin) Rattus norvegicus
Analyze
Symbol: Nfasc
Name: neurofascin
RGD ID: 620911
Description: Exhibits protein domain specific binding activity. Involved in myelination; peripheral nervous system development; and protein localization to plasma membrane. Localizes to several cellular components, including Schwann cell microvillus; dendrite; and main axon. Orthologous to human NFASC (neurofascin); INTERACTS WITH 6-propyl-2-thiouracil; ammonium chloride; bisphenol A.
Type: protein-coding
RefSeq Status: REVIEWED
Also known as: NF
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21343,997,223 - 44,183,863 (-)NCBI
Rnor_6.0 Ensembl1349,335,408 - 49,522,415 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01349,335,407 - 49,522,474 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01354,410,796 - 54,597,394 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41345,450,550 - 45,637,877 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11345,470,231 - 45,543,152 (-)NCBI
Celera1344,330,874 - 44,517,354 (-)NCBICelera
Cytogenetic Map13q13NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


References

Additional References at PubMed
PMID:7961622   PMID:8889548   PMID:9151675   PMID:12223548   PMID:12975355   PMID:15479642   PMID:15691718   PMID:15797713   PMID:16039564   PMID:16337912   PMID:16566914   PMID:16701205  
PMID:16723544   PMID:17234591   PMID:17634366   PMID:17846150   PMID:17936266   PMID:18048693   PMID:19185024   PMID:19666467   PMID:20188654   PMID:20371806   PMID:21423176   PMID:21576239  
PMID:21700703   PMID:23376485   PMID:23971736   PMID:25511445   PMID:25653379   PMID:26511327   PMID:26671463   PMID:27583434   PMID:29404957   PMID:29476059   PMID:30850329  


Genomics

Comparative Map Data
Nfasc
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21343,997,223 - 44,183,863 (-)NCBI
Rnor_6.0 Ensembl1349,335,408 - 49,522,415 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01349,335,407 - 49,522,474 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01354,410,796 - 54,597,394 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41345,450,550 - 45,637,877 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11345,470,231 - 45,543,152 (-)NCBI
Celera1344,330,874 - 44,517,354 (-)NCBICelera
Cytogenetic Map13q13NCBI
NFASC
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1204,828,651 - 205,022,822 (+)EnsemblGRCh38hg38GRCh38
GRCh381204,828,652 - 205,022,822 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh371204,797,780 - 204,991,950 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361203,064,446 - 203,258,572 (+)NCBINCBI36hg18NCBI36
Build 341201,529,438 - 201,723,621NCBI
Celera1177,932,899 - 178,127,015 (+)NCBI
Cytogenetic Map1q32.1NCBI
HuRef1175,963,008 - 176,157,672 (+)NCBIHuRef
CHM1_11206,221,207 - 206,415,296 (+)NCBICHM1_1
Nfasc
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391132,492,428 - 132,669,567 (-)NCBIGRCm39mm39
GRCm39 Ensembl1132,492,428 - 132,669,535 (-)Ensembl
GRCm381132,564,690 - 132,741,848 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1132,564,690 - 132,741,797 (-)EnsemblGRCm38mm10GRCm38
MGSCv371134,461,267 - 134,638,374 (-)NCBIGRCm37mm9NCBIm37
MGSCv361134,397,532 - 134,569,311 (-)NCBImm8
Celera1135,173,259 - 135,350,595 (-)NCBICelera
Cytogenetic Map1E4NCBI
cM Map157.42NCBI
Nfasc
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540640,743,872 - 40,808,962 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495540640,632,971 - 40,814,930 (+)NCBIChiLan1.0ChiLan1.0
NFASC
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11184,760,032 - 184,911,633 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1184,759,115 - 184,905,467 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01180,430,523 - 180,624,953 (+)NCBIMhudiblu_PPA_v0panPan3
NFASC
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1381,367,128 - 1,546,909 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl381,366,251 - 1,543,630 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha381,461,694 - 1,641,383 (+)NCBI
ROS_Cfam_1.0381,364,188 - 1,541,272 (+)NCBI
UMICH_Zoey_3.1381,360,848 - 1,540,002 (+)NCBI
UNSW_CanFamBas_1.0381,751,583 - 1,931,202 (+)NCBI
UU_Cfam_GSD_1.0381,951,355 - 2,128,798 (+)NCBI
Nfasc
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934470,105,531 - 70,244,171 (-)NCBI
SpeTri2.0NW_0049365577,345,813 - 7,437,654 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
NFASC
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl965,502,252 - 65,713,548 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1965,502,565 - 65,715,612 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2971,839,754 - 71,915,485 (+)NCBISscrofa10.2Sscrofa10.2susScr3
NFASC
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12524,315,877 - 24,516,524 (-)NCBI
ChlSab1.1 Ensembl2524,321,574 - 24,474,635 (-)Ensembl
Nfasc
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248076,097,507 - 6,260,880 (-)NCBI

Position Markers
D13Rat105  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21344,139,595 - 44,139,796 (+)MAPPER
Rnor_6.01349,478,067 - 49,478,267NCBIRnor6.0
Rnor_5.01354,552,997 - 54,553,197UniSTSRnor5.0
RGSC_v3.41345,592,985 - 45,593,186RGDRGSC3.4
RGSC_v3.41345,592,986 - 45,593,186UniSTSRGSC3.4
RGSC_v3.11345,607,028 - 45,607,229RGD
Celera1344,473,240 - 44,473,440UniSTS
FHH x ACI Map1318.27RGD
FHH x ACI Map1318.27UniSTS
Cytogenetic Map13q13UniSTS
RH132614  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21343,997,321 - 43,997,508 (+)MAPPER
Rnor_6.01349,335,506 - 49,335,692NCBIRnor6.0
Rnor_5.01354,410,895 - 54,411,081UniSTSRnor5.0
RGSC_v3.41345,450,649 - 45,450,835UniSTSRGSC3.4
Celera1344,330,973 - 44,331,159UniSTS
RH 3.4 Map13113.4UniSTS
Cytogenetic Map13q13UniSTS
RH144666  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21344,001,867 - 44,002,030 (+)MAPPER
Rnor_6.01349,340,052 - 49,340,214NCBIRnor6.0
Rnor_5.01354,415,441 - 54,415,603UniSTSRnor5.0
RGSC_v3.41345,455,195 - 45,455,357UniSTSRGSC3.4
Celera1344,335,519 - 44,335,681UniSTS
RH 3.4 Map13199.5UniSTS
Cytogenetic Map13q13UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)131107975663Rat
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)131107975663Rat
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)131107975663Rat
61339Bp24Blood pressure QTL 240.05arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)13901674250513953Rat
1581554Pur11Proteinuria QTL 11urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)13901690682995569Rat
1581573Uae36Urinary albumin excretion QTL 36urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)13901690682995569Rat
1581570Eae17Experimental allergic encephalomyelitis QTL 174.1nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)1312193394108478121Rat
9589141Insul28Insulin level QTL 2810.820.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)131409633059096330Rat
7411662Foco29Food consumption QTL 2920.80.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)131409633059096330Rat
1300163Cardf1Cardiac cell morphology QTL 14.18aorta morphology trait (VT:0000272)artery lesion measurement (CMO:0000975)131444158250799665Rat
2302275Gluco37Glucose level QTL 373.8blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)131444158251577031Rat
2317040Aia21Adjuvant induced arthritis QTL 212.75joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)131462463159624631Rat
2317046Aia8Adjuvant induced arthritis QTL 83.9700000286102295joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)131462463159624631Rat
631645Bp121Blood pressure QTL 1213.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)131981081464810814Rat
9589164Gluco66Glucose level QTL 666.670.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)132005247765052477Rat
1331784Bp222Blood pressure QTL 2222.944arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)132148248158537177Rat
7207885Glom27Glomerulus QTL 273.9kidney glomerulus integrity trait (VT:0010546)kidney crescentic glomeruli count to kidney normal glomeruli count ratio (CMO:0002139)1324502279108770533Rat
61391Bp5Blood pressure QTL 55.6arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)132800833873008338Rat
70170Eae14Experimental allergic encephalomyelitis QTL 140.0024nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)132858445273584452Rat
1558644Cm45Cardiac mass QTL 453.60.002heart mass (VT:0007028)heart wet weight (CMO:0000069)132907693474076934Rat
6893338Cm76Cardiac mass QTL 7600.99heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)132907693474076934Rat
1354621Rf47Renal function QTL 473.7kidney renin amount (VT:0010559)kidney renin level (CMO:0002166)1335301263107975663Rat
2301962Cm72Cardiac mass QTL 724.12heart left ventricle mass (VT:0007031)heart left ventricle weight (CMO:0000776)133614753364868393Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)133614753399968921Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)133614753399968921Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)133614753399968921Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)absolute change in mean arterial blood pressure (CMO:0000533)133614753399968921Rat
2303563Bw89Body weight QTL 896body mass (VT:0001259)body weight (CMO:0000012)133734634882346348Rat
61340Bp25Blood pressure QTL 254.20.004arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)133937292784372927Rat
10755495Bp387Blood pressure QTL 3873.78arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)133950130093652524Rat
4889861Pur29Proteinuria QTL 2913.80.005total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)134231074486833540Rat
1331750Bp220Blood pressure QTL 2202.98arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)134231074487310744Rat
70220Bp55Blood pressure QTL 555.75arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)134250834587508345Rat
61349Bp31Blood pressure QTL 315.75arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)134250834587508345Rat
1549897Stresp12Stress response QTL 123.35stress-related behavior trait (VT:0010451)number of approaches toward negative stimulus before onset of defensive burying response (CMO:0001960)134357571788575717Rat
619615Bp80Blood pressure QTL 800.0354arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)134567662990676629Rat
2303032Bp328Blood pressure QTL 328arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)134644457050799665Rat
4145117Mcs27Mammary carcinoma susceptibility QTL 270.0001mammary gland integrity trait (VT:0010552)post-insult time to mammary tumor formation (CMO:0000345)134877665553264877Rat
6893344Cm79Cardiac mass QTL 791.50.04heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)134905850767207219Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:2664
Count of miRNA genes:335
Interacting mature miRNAs:467
Transcripts:ENSRNOT00000044972, ENSRNOT00000051512, ENSRNOT00000060871
Prediction methods:Microtar, Miranda, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 74
Low 3 7 12 2 18 2 8 11 2 32 4 8
Below cutoff 28 23 17 1 17 28 9 7

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001160313 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001160314 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001160315 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_053909 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006249727 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006249734 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006249738 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017598638 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017598639 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017598640 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017598641 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017598642 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017598643 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017598644 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017598645 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017598646 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017598647 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017598648 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017598649 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017598650 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017598651 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017598652 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039090275 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039090277 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039090278 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039090280 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039090281 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005492192 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC105703 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC134289 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AY061639 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BF410020 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473958 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000242 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  L11002 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  U81035 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  U81036 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000044972   ⟹   ENSRNOP00000044067
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1349,335,408 - 49,487,892 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000051512   ⟹   ENSRNOP00000049964
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1349,335,408 - 49,522,415 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000060871   ⟹   ENSRNOP00000057594
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1349,335,408 - 49,522,415 (-)Ensembl
RefSeq Acc Id: NM_001160313   ⟹   NP_001153785
RefSeq Status: REVIEWED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21343,997,223 - 44,075,710 (-)NCBI
Rnor_6.01349,335,407 - 49,413,885 (-)NCBI
Rnor_5.01354,410,796 - 54,597,394 (-)NCBI
RGSC_v3.41345,450,550 - 45,637,877 (-)RGD
Celera1344,330,874 - 44,409,363 (-)NCBI
Sequence:
RefSeq Acc Id: NM_001160314   ⟹   NP_001153786
RefSeq Status: REVIEWED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21343,997,223 - 44,183,811 (-)NCBI
Rnor_6.01349,335,407 - 49,522,415 (-)NCBI
Rnor_5.01354,410,796 - 54,597,394 (-)NCBI
RGSC_v3.41345,450,550 - 45,637,877 (-)RGD
Celera1344,330,874 - 44,517,354 (-)RGD
Sequence:
RefSeq Acc Id: NM_001160315   ⟹   NP_001153787
RefSeq Status: REVIEWED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21343,997,223 - 44,149,036 (-)NCBI
Rnor_6.01349,335,407 - 49,487,892 (-)NCBI
Rnor_5.01354,410,796 - 54,597,394 (-)NCBI
RGSC_v3.41345,450,550 - 45,637,877 (-)RGD
Celera1344,330,874 - 44,482,669 (-)NCBI
Sequence:
RefSeq Acc Id: NM_053909   ⟹   NP_446361
RefSeq Status: REVIEWED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21343,997,223 - 44,183,811 (-)NCBI
Rnor_6.01349,335,407 - 49,522,415 (-)NCBI
Rnor_5.01354,410,796 - 54,597,394 (-)NCBI
RGSC_v3.41345,450,550 - 45,637,877 (-)RGD
Celera1344,330,874 - 44,517,354 (-)RGD
Sequence:
RefSeq Acc Id: XM_006249727   ⟹   XP_006249789
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21343,997,223 - 44,183,863 (-)NCBI
Rnor_6.01349,335,407 - 49,522,474 (-)NCBI
Rnor_5.01354,410,796 - 54,597,394 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006249734   ⟹   XP_006249796
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01349,335,407 - 49,522,470 (-)NCBI
Rnor_5.01354,410,796 - 54,597,394 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006249738   ⟹   XP_006249800
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01349,335,407 - 49,522,472 (-)NCBI
Rnor_5.01354,410,796 - 54,597,394 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017598638   ⟹   XP_017454127
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21343,997,223 - 44,183,863 (-)NCBI
Rnor_6.01349,335,407 - 49,522,474 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017598639   ⟹   XP_017454128
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21343,997,223 - 44,183,863 (-)NCBI
Rnor_6.01349,335,407 - 49,522,474 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017598640   ⟹   XP_017454129
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21343,997,223 - 44,183,863 (-)NCBI
Rnor_6.01349,335,407 - 49,522,474 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017598641   ⟹   XP_017454130
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21343,997,223 - 44,183,863 (-)NCBI
Rnor_6.01349,335,407 - 49,522,473 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017598642   ⟹   XP_017454131
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21343,997,223 - 44,183,863 (-)NCBI
Rnor_6.01349,335,407 - 49,522,473 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017598643   ⟹   XP_017454132
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21343,997,223 - 44,183,863 (-)NCBI
Rnor_6.01349,335,407 - 49,522,473 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017598644   ⟹   XP_017454133
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21343,997,223 - 44,183,863 (-)NCBI
Rnor_6.01349,335,407 - 49,522,472 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017598645   ⟹   XP_017454134
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21343,997,223 - 44,183,863 (-)NCBI
Rnor_6.01349,335,407 - 49,522,472 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017598646   ⟹   XP_017454135
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21343,997,223 - 44,183,863 (-)NCBI
Rnor_6.01349,335,407 - 49,522,472 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017598647   ⟹   XP_017454136
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21343,997,223 - 44,183,863 (-)NCBI
Rnor_6.01349,335,407 - 49,522,471 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017598648   ⟹   XP_017454137
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21343,997,223 - 44,183,863 (-)NCBI
Rnor_6.01349,335,407 - 49,522,472 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017598649   ⟹   XP_017454138
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21343,997,223 - 44,183,863 (-)NCBI
Rnor_6.01349,335,407 - 49,522,471 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017598650   ⟹   XP_017454139
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21343,997,223 - 44,183,863 (-)NCBI
Rnor_6.01349,335,407 - 49,522,470 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017598651   ⟹   XP_017454140
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21343,997,223 - 44,149,073 (-)NCBI
Rnor_6.01349,335,407 - 49,487,665 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017598652   ⟹   XP_017454141
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21343,997,223 - 44,183,827 (-)NCBI
Rnor_6.01349,335,407 - 49,522,388 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039090275   ⟹   XP_038946203
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21343,997,223 - 44,183,863 (-)NCBI
RefSeq Acc Id: XM_039090277   ⟹   XP_038946205
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21343,997,223 - 44,183,863 (-)NCBI
RefSeq Acc Id: XM_039090278   ⟹   XP_038946206
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21343,997,223 - 44,183,863 (-)NCBI
RefSeq Acc Id: XM_039090280   ⟹   XP_038946208
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21343,997,223 - 44,183,863 (-)NCBI
RefSeq Acc Id: XM_039090281   ⟹   XP_038946209
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21344,029,179 - 44,183,863 (-)NCBI
RefSeq Acc Id: XR_005492192
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21344,029,040 - 44,183,863 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001153785 (Get FASTA)   NCBI Sequence Viewer  
  NP_001153786 (Get FASTA)   NCBI Sequence Viewer  
  NP_001153787 (Get FASTA)   NCBI Sequence Viewer  
  NP_446361 (Get FASTA)   NCBI Sequence Viewer  
  XP_006249789 (Get FASTA)   NCBI Sequence Viewer  
  XP_017454127 (Get FASTA)   NCBI Sequence Viewer  
  XP_017454128 (Get FASTA)   NCBI Sequence Viewer  
  XP_017454129 (Get FASTA)   NCBI Sequence Viewer  
  XP_017454130 (Get FASTA)   NCBI Sequence Viewer  
  XP_017454131 (Get FASTA)   NCBI Sequence Viewer  
  XP_017454132 (Get FASTA)   NCBI Sequence Viewer  
  XP_017454133 (Get FASTA)   NCBI Sequence Viewer  
  XP_017454134 (Get FASTA)   NCBI Sequence Viewer  
  XP_017454135 (Get FASTA)   NCBI Sequence Viewer  
  XP_017454136 (Get FASTA)   NCBI Sequence Viewer  
  XP_017454137 (Get FASTA)   NCBI Sequence Viewer  
  XP_017454138 (Get FASTA)   NCBI Sequence Viewer  
  XP_017454139 (Get FASTA)   NCBI Sequence Viewer  
  XP_017454140 (Get FASTA)   NCBI Sequence Viewer  
  XP_017454141 (Get FASTA)   NCBI Sequence Viewer  
  XP_038946203 (Get FASTA)   NCBI Sequence Viewer  
  XP_038946205 (Get FASTA)   NCBI Sequence Viewer  
  XP_038946206 (Get FASTA)   NCBI Sequence Viewer  
  XP_038946208 (Get FASTA)   NCBI Sequence Viewer  
  XP_038946209 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAB47753 (Get FASTA)   NCBI Sequence Viewer  
  AAB47754 (Get FASTA)   NCBI Sequence Viewer  
  AAL27854 (Get FASTA)   NCBI Sequence Viewer  
  EDM09785 (Get FASTA)   NCBI Sequence Viewer  
  EDM09786 (Get FASTA)   NCBI Sequence Viewer  
  EDM09787 (Get FASTA)   NCBI Sequence Viewer  
  EDM09788 (Get FASTA)   NCBI Sequence Viewer  
  EDM09789 (Get FASTA)   NCBI Sequence Viewer  
  EDM09790 (Get FASTA)   NCBI Sequence Viewer  
  EDM09791 (Get FASTA)   NCBI Sequence Viewer  
  P97685 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_446361   ⟸   NM_053909
- Peptide Label: isoform 3 precursor
- Sequence:
RefSeq Acc Id: NP_001153786   ⟸   NM_001160314
- Peptide Label: isoform 1 precursor
- UniProtKB: P97685 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: NP_001153787   ⟸   NM_001160315
- Peptide Label: isoform 4 precursor
- UniProtKB: D3ZW56 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_001153785   ⟸   NM_001160313
- Peptide Label: isoform 2 precursor
- Sequence:
RefSeq Acc Id: XP_006249789   ⟸   XM_006249727
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_006249800   ⟸   XM_006249738
- Peptide Label: isoform X14
- Sequence:
RefSeq Acc Id: XP_006249796   ⟸   XM_006249734
- Peptide Label: isoform X9
- Sequence:
RefSeq Acc Id: XP_017454128   ⟸   XM_017598639
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_017454129   ⟸   XM_017598640
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: XP_017454127   ⟸   XM_017598638
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_017454131   ⟸   XM_017598642
- Peptide Label: isoform X8
- Sequence:
RefSeq Acc Id: XP_017454130   ⟸   XM_017598641
- Peptide Label: isoform X7
- Sequence:
RefSeq Acc Id: XP_017454132   ⟸   XM_017598643
- Peptide Label: isoform X9
- Sequence:
RefSeq Acc Id: XP_017454137   ⟸   XM_017598648
- Peptide Label: isoform X16
- Sequence:
RefSeq Acc Id: XP_017454133   ⟸   XM_017598644
- Peptide Label: isoform X11
- Sequence:
RefSeq Acc Id: XP_017454135   ⟸   XM_017598646
- Peptide Label: isoform X14
- Sequence:
RefSeq Acc Id: XP_017454134   ⟸   XM_017598645
- Peptide Label: isoform X13
- Sequence:
RefSeq Acc Id: XP_017454138   ⟸   XM_017598649
- Peptide Label: isoform X17
- Sequence:
RefSeq Acc Id: XP_017454136   ⟸   XM_017598647
- Peptide Label: isoform X15
- Sequence:
RefSeq Acc Id: XP_017454139   ⟸   XM_017598650
- Peptide Label: isoform X18
- Sequence:
RefSeq Acc Id: XP_017454141   ⟸   XM_017598652
- Peptide Label: isoform X10
- Sequence:
RefSeq Acc Id: XP_017454140   ⟸   XM_017598651
- Peptide Label: isoform X10
- Sequence:
RefSeq Acc Id: ENSRNOP00000057594   ⟸   ENSRNOT00000060871
RefSeq Acc Id: ENSRNOP00000049964   ⟸   ENSRNOT00000051512
RefSeq Acc Id: ENSRNOP00000044067   ⟸   ENSRNOT00000044972
RefSeq Acc Id: XP_038946208   ⟸   XM_039090280
- Peptide Label: isoform X19
RefSeq Acc Id: XP_038946205   ⟸   XM_039090277
- Peptide Label: isoform X6
RefSeq Acc Id: XP_038946206   ⟸   XM_039090278
- Peptide Label: isoform X12
RefSeq Acc Id: XP_038946203   ⟸   XM_039090275
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038946209   ⟸   XM_039090281
- Peptide Label: isoform X20
Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen

Promoters
RGD ID:13698815
Promoter ID:EPDNEW_R9340
Type:single initiation site
Name:Nfasc_1
Description:neurofascin
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01349,522,428 - 49,522,488EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
F344/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
GH/OmrMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/Ox (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LE/Stm (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MHS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHRSP/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Damaging Variants


Assembly: Rnor_5.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
13 54446075 54446076 C T snv GH/OmrMcwi (MCW), FHH/EurMcwi (MCW), FHL/EurMcwi (MCW), FHH/EurMcwi (KNAW), FHL/EurMcwi (KNAW)
13 54451010 54451011 C T snv IS/Kyo (KyushuU), IS-Tlk/Kyo (KyushuU)
13 54466521 54466522 T C snv NIG-III/Hok (KyushuU)


Assembly: Rnor_6.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
13 49370778 49370779 C T snv GH/OmrMcwi (MCW), FHH/EurMcwi (MCW), FHH/EurMcwi (RGD), FHL/EurMcwi (RGD), FHL/EurMcwi (MCW)
13 49390005 49390006 T C snv F344/NCrl (RGD)


Assembly: RGSC_v3.4

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
13 45486001 45486002 C T snv FHH/EurMcwi (MDC), FHH/EurMcwi (MCW), FHL/EurMcwi (ICL), GH/OmrMcwi (MCW), FHH/EurMcwi (ICL), FHL/EurMcwi (MCW)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:620911 AgrOrtholog
Ensembl Genes ENSRNOG00000030515 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000044067 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000049964 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000057594 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000044972 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000051512 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000060871 ENTREZGENE, UniProtKB/Swiss-Prot
Gene3D-CATH 2.60.40.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro Basigin-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  FN3_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  FN3_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig-like_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig-like_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig-like_fold UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig_I-set UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig_sub UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig_sub2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Immunoglobulin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Neurofascin/L1/NrCAM_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  NFASC UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:116690 UniProtKB/Swiss-Prot
NCBI Gene 116690 ENTREZGENE
PANTHER PTHR10075 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR10075:SF35 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Bravo_FIGEY UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  fn3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  I-set UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PF00047 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Nfasc PhenoGen
PROSITE FN3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  IG_LIKE UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART FN3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  IGc2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SM00409 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF48726 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF49265 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt D3ZNW5_RAT UniProtKB/TrEMBL
  D3ZW56 ENTREZGENE, UniProtKB/TrEMBL
  NFASC_RAT UniProtKB/Swiss-Prot, ENTREZGENE
UniProt Secondary P97684 UniProtKB/Swiss-Prot
  Q91Z60 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2004-02-26 Nfasc  neurofascin      Symbol and Name status set to approved 625702 APPROVED
2002-08-07 Nfasc  neurofascin      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_expression up-regulated in oligodendrocytes at the onset of myelinogenesis 633391