Fam78b (family with sequence similarity 78, member B) - Rat Genome Database

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Gene: Fam78b (family with sequence similarity 78, member B) Rattus norvegicus
Analyze
Symbol: Fam78b
Name: family with sequence similarity 78, member B
RGD ID: 1564387
Description: Orthologous to human FAM78B (family with sequence similarity 78 member B); INTERACTS WITH 2,2',4,4'-Tetrabromodiphenyl ether; 6-propyl-2-thiouracil; atrazine.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC498269; RGD1564387; similar to RIKEN cDNA C030014K22 gene
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81381,695,329 - 81,783,881 (+)NCBIGRCr8
mRatBN7.21379,162,393 - 79,250,958 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1379,162,228 - 79,250,500 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1381,792,296 - 81,880,766 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01383,099,644 - 83,188,249 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01380,337,054 - 80,425,915 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01385,110,536 - 85,233,243 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1385,110,098 - 85,231,155 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.013101,282,342 - 101,286,412 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41382,743,405 - 82,753,843 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1378,868,574 - 78,946,710 (+)NCBICelera
Cytogenetic Map13q23-q24NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


References

References - curated
# Reference Title Reference Citation
1. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
2. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions

Genomics

Comparative Map Data
Fam78b
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81381,695,329 - 81,783,881 (+)NCBIGRCr8
mRatBN7.21379,162,393 - 79,250,958 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1379,162,228 - 79,250,500 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1381,792,296 - 81,880,766 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01383,099,644 - 83,188,249 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01380,337,054 - 80,425,915 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01385,110,536 - 85,233,243 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1385,110,098 - 85,231,155 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.013101,282,342 - 101,286,412 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41382,743,405 - 82,753,843 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1378,868,574 - 78,946,710 (+)NCBICelera
Cytogenetic Map13q23-q24NCBI
FAM78B
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381166,055,918 - 166,167,001 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1166,057,426 - 166,167,001 (-)EnsemblGRCh38hg38GRCh38
GRCh371166,025,155 - 166,136,238 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361164,305,880 - 164,402,830 (-)NCBINCBI36Build 36hg18NCBI36
Celera1139,144,622 - 139,241,325 (-)NCBICelera
Cytogenetic Map1q24.1NCBI
HuRef1137,286,635 - 137,382,779 (-)NCBIHuRef
CHM1_11167,461,504 - 167,558,014 (-)NCBICHM1_1
T2T-CHM13v2.01165,402,009 - 165,513,030 (-)NCBIT2T-CHM13v2.0
Fam78b
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391166,827,456 - 166,918,871 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1166,828,986 - 166,918,871 (+)EnsemblGRCm39 Ensembl
GRCm381166,999,851 - 167,091,302 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1167,001,417 - 167,091,302 (+)EnsemblGRCm38mm10GRCm38
MGSCv371168,931,548 - 169,021,433 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361168,838,150 - 168,927,684 (+)NCBIMGSCv36mm8
Celera1169,414,371 - 169,504,079 (+)NCBICelera
Cytogenetic Map1H2.3NCBI
cM Map174.38NCBI
Fam78b
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495546210,596,799 - 10,693,428 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495546210,596,799 - 10,693,428 (+)NCBIChiLan1.0ChiLan1.0
FAM78B
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2183,603,762 - 83,713,887 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1183,271,400 - 83,382,223 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01141,483,720 - 141,594,496 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11145,286,214 - 145,382,515 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1145,287,152 - 145,382,571 (-)Ensemblpanpan1.1panPan2
FAM78B
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13817,292,444 - 17,368,328 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3817,292,327 - 17,378,403 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3817,348,494 - 17,436,778 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.03817,340,729 - 17,429,215 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3817,340,745 - 17,428,674 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13817,344,896 - 17,433,367 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03817,694,835 - 17,784,614 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03817,990,203 - 18,078,734 (+)NCBIUU_Cfam_GSD_1.0
Fam78b
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024409344101,529,773 - 101,594,564 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493648119,376,516 - 19,431,131 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493648119,376,522 - 19,441,313 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
FAM78B
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl484,597,727 - 84,689,698 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1484,597,824 - 84,705,060 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2492,281,457 - 92,433,152 (+)NCBISscrofa10.2Sscrofa10.2susScr3
FAM78B
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12562,730,373 - 62,820,208 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2562,730,792 - 62,819,982 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605564,480,846 - 64,583,678 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Fam78b
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248264,374,933 - 4,467,857 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248264,374,933 - 4,467,846 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Fam78b
525 total Variants

QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1298066Bp159Blood pressure QTL 1590.004arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)134608804691088046Rat
10755495Bp387Blood pressure QTL 3873.78arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)133466346187525369Rat
1354655Bp241Blood pressure QTL 2413.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1356056920101056920Rat
70220Bp55Blood pressure QTL 555.75arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)133737450982374509Rat
8655945Rf61Renal function QTL 613.6blood creatinine amount (VT:0005328)creatinine clearance (CMO:0000765)136906051986800898Rat
71119Thym2Thymus enlargement QTL 23.8thymus mass (VT:0004954)thymus weight to body weight ratio (CMO:0000612)134619797684753113Rat
4889861Pur29Proteinuria QTL 2913.80.005urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)133741558480753406Rat
1331783Bp221Blood pressure QTL 2213.72886arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)136906051986800898Rat
8655959Pur32Proteinuria QTL 328.4urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)137402391897213863Rat
12879441Bp396Blood pressure QTL 396arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)134569998390699983Rat
2293687Bss26Bone structure and strength QTL 264.60.0001femur morphology trait (VT:0000559)femur cross-sectional area (CMO:0001661)1365103704106807694Rat
1300166Kidm6Kidney mass QTL 63.93kidney mass (VT:0002707)single kidney wet weight to body weight ratio (CMO:0000622)136906051986800898Rat
619615Bp80Blood pressure QTL 800.0354arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)133975454484754544Rat
1581570Eae17Experimental allergic encephalomyelitis QTL 174.1nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)138897350101631289Rat
61340Bp25Blood pressure QTL 254.20.004arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)133453521879535218Rat
1549897Stresp12Stress response QTL 123.35stress-related behavior trait (VT:0010451)number of approaches toward negative stimulus before onset of defensive burying response (CMO:0001960)133843340883433408Rat
7207885Glom27Glomerulus QTL 273.9kidney glomerulus integrity trait (VT:0010546)kidney crescentic glomeruli count to kidney normal glomeruli count ratio (CMO:0002139)1320605871101339738Rat
7387280Uae43Urinary albumin excretion QTL 435.690.4174urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)1366451204106807694Rat
738027Lnnr6Liver neoplastic nodule remodeling QTL 63.3liver integrity trait (VT:0010547)liver remodeling tumorous lesion number (CMO:0001461)137486211785581182Rat
738026Lnnr5Liver neoplastic nodule remodeling QTL 53.29liver integrity trait (VT:0010547)liver remodeling tumorous lesion number (CMO:0001461)135987440885581182Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)absolute change in mean arterial blood pressure (CMO:0000533)133124133193395974Rat
2293702Bss34Bone structure and strength QTL 344.610.0001femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)1365103704106807694Rat
61349Bp31Blood pressure QTL 315.75arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)133737450982374509Rat
1354621Rf47Renal function QTL 473.7kidney renin amount (VT:0010559)kidney renin level (CMO:0002166)1330395351101056920Rat
12879477Bp401Blood pressure QTL 401arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)133726209282262092Rat
1331750Bp220Blood pressure QTL 2202.98arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)133741558482415584Rat
1641901Alcrsp6Alcohol response QTL 6response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)135236217197362171Rat
12879475Bp400Blood pressure QTL 400arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1361825626106807694Rat
11530006Niddm72Non-insulin dependent diabetes mellitus QTL 720.001blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)137402391880753406Rat
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)131101056920Rat
2293341Glom15Glomerulus QTL 159.1kidney glomerulus integrity trait (VT:0010546)kidney sclerotic glomeruli count to total glomeruli count ratio (CMO:0001269)1374862117101339893Rat

Markers in Region
BI274278  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21379,240,191 - 79,240,308 (+)MAPPERmRatBN7.2
Rnor_6.01385,232,227 - 85,232,343NCBIRnor6.0
Rnor_5.013101,285,396 - 101,285,512UniSTSRnor5.0
RGSC_v3.41382,745,561 - 82,745,677UniSTSRGSC3.4
Celera1378,945,694 - 78,945,810UniSTS
RH 3.4 Map13522.8UniSTS
Cytogenetic Map13q23UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
9 11 49 113 77 76 45 25 45 6 204 97 93 45 60 31

Sequence


Ensembl Acc Id: ENSRNOT00000087368   ⟹   ENSRNOP00000070036
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1385,110,098 - 85,231,155 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000115415   ⟹   ENSRNOP00000093749
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1379,162,228 - 79,250,500 (+)Ensembl
RefSeq Acc Id: NM_001398658   ⟹   NP_001385587
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81381,695,329 - 81,774,131 (+)NCBI
mRatBN7.21379,162,393 - 79,241,208 (+)NCBI
RefSeq Acc Id: NR_174119
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81381,695,329 - 81,783,881 (+)NCBI
mRatBN7.21379,162,393 - 79,250,958 (+)NCBI
Protein Sequences
Protein RefSeqs NP_001385587 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDM09289 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000093749
  ENSRNOP00000093749.1
Ensembl Acc Id: ENSRNOP00000070036   ⟸   ENSRNOT00000087368
Ensembl Acc Id: ENSRNOP00000093749   ⟸   ENSRNOT00000115415
RefSeq Acc Id: NP_001385587   ⟸   NM_001398658
- UniProtKB: A0A8I6AGD7 (UniProtKB/TrEMBL)

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-A0A0G2JWW0-F1-model_v2 AlphaFold A0A0G2JWW0 1-260 view protein structure

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1564387 AgrOrtholog
BioCyc Gene G2FUF-17532 BioCyc
Ensembl Genes ENSRNOG00000051941 Ensembl
  ENSRNOG00000068017 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000115415 ENTREZGENE
  ENSRNOT00000115415.1 UniProtKB/TrEMBL
InterPro FAM78 UniProtKB/TrEMBL
NCBI Gene 498269 ENTREZGENE
PANTHER PTHR31655 UniProtKB/TrEMBL
  PTHR31655:SF0 UniProtKB/TrEMBL
PhenoGen Fam78b PhenoGen
RatGTEx ENSRNOG00000051941 RatGTEx
  ENSRNOG00000068017 RatGTEx
UniProt A0A8I6AGD7 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2022-06-02 Fam78b  family with sequence similarity 78, member B  Fam78b  family with sequence similarity 78, member B  Data merged from RGD:149736516 737654 PROVISIONAL
2021-08-09 Fam78b  family with sequence similarity 78, member B      Symbol and Name status set to provisional 45752 PROVISIONAL
2013-11-25 Fam78b  family with sequence similarity 78, member B  RGD1564387  similar to RIKEN cDNA C030014K22 gene  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 RGD1564387  similar to RIKEN cDNA C030014K22 gene   RGD1564387_predicted  similar to RIKEN cDNA C030014K22 gene (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-07 RGD1564387_predicted  similar to RIKEN cDNA C030014K22 gene (predicted)  LOC498269  similar to RIKEN cDNA C030014K22 gene  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC498269  similar to RIKEN cDNA C030014K22 gene      Symbol and Name status set to provisional 70820 PROVISIONAL