Vcf1 (VCP nuclear cofactor family member 1) - Rat Genome Database

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Gene: Vcf1 (VCP nuclear cofactor family member 1) Rattus norvegicus
Analyze
Symbol: Vcf1 (Ensembl: Fam104a)
Name: VCP nuclear cofactor family member 1 (Ensembl:family with sequence similarity 104, member A)
RGD ID: 1563409
Description: Orthologous to human VCF1 (VCP nuclear cofactor family member 1); INTERACTS WITH bisphenol A; cadmium dichloride; endosulfan.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: Fam104a; family with sequence similarity 104, member A; hypothetical protein LOC619573; LOC619573; uncharacterized protein LOC619573
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81099,206,549 - 99,227,471 (-)NCBIGRCr8
mRatBN7.21098,707,404 - 98,728,486 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1098,707,410 - 98,728,728 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx10103,759,394 - 103,780,179 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.010103,222,439 - 103,243,226 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01098,627,444 - 98,648,370 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.010102,179,478 - 102,200,488 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl10102,179,478 - 102,200,596 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.010101,859,026 - 101,879,783 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.410103,291,220 - 103,312,198 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1097,314,417 - 97,335,336 (-)NCBICelera
Cytogenetic Map10q32.1NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Molecular Function

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
3. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.

Genomics

Comparative Map Data
Vcf1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81099,206,549 - 99,227,471 (-)NCBIGRCr8
mRatBN7.21098,707,404 - 98,728,486 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1098,707,410 - 98,728,728 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx10103,759,394 - 103,780,179 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.010103,222,439 - 103,243,226 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01098,627,444 - 98,648,370 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.010102,179,478 - 102,200,488 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl10102,179,478 - 102,200,596 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.010101,859,026 - 101,879,783 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.410103,291,220 - 103,312,198 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1097,314,417 - 97,335,336 (-)NCBICelera
Cytogenetic Map10q32.1NCBI
VCF1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381773,207,353 - 73,232,394 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1773,207,353 - 73,236,753 (-)EnsemblGRCh38hg38GRCh38
GRCh371771,203,492 - 71,228,533 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361768,715,087 - 68,740,128 (-)NCBINCBI36Build 36hg18NCBI36
Celera1767,786,638 - 67,811,677 (-)NCBICelera
Cytogenetic Map17q25.1NCBI
HuRef1766,612,519 - 66,637,546 (-)NCBIHuRef
CHM1_11771,267,552 - 71,292,613 (-)NCBICHM1_1
T2T-CHM13v2.01774,097,081 - 74,122,120 (-)NCBIT2T-CHM13v2.0
Vcf1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3911113,552,145 - 113,574,988 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl11113,552,145 - 113,574,981 (-)EnsemblGRCm39 Ensembl
GRCm3811113,661,319 - 113,684,189 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl11113,661,319 - 113,684,155 (-)EnsemblGRCm38mm10GRCm38
MGSCv3711113,522,633 - 113,545,465 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv3611113,477,410 - 113,500,122 (-)NCBIMGSCv36mm8
Celera11125,425,403 - 125,448,233 (-)NCBICelera
Cytogenetic Map11E2NCBI
cM Map1179.12NCBI
Vcf1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955553232,369 - 251,265 (-)EnsemblChiLan1.0
ChiLan1.0NW_004955553230,193 - 251,322 (-)NCBIChiLan1.0ChiLan1.0
VCF1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21989,224,750 - 89,250,385 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11794,049,621 - 94,075,317 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01767,135,340 - 67,160,999 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11772,590,802 - 72,615,989 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1772,590,802 - 72,615,989 (-)Ensemblpanpan1.1panPan2
VCF1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.196,948,612 - 6,966,741 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha97,570,207 - 7,588,318 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.097,621,129 - 7,639,616 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl97,621,466 - 7,639,602 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.197,661,551 - 7,680,032 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.097,764,441 - 7,782,934 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.097,825,215 - 7,843,943 (+)NCBIUU_Cfam_GSD_1.0
Vcf1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_0244056027,505,139 - 7,524,256 (+)NCBIHiC_Itri_2
SpeTri2.0NW_0049366551,002,956 - 1,021,491 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
VCF1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl127,727,796 - 7,749,240 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1127,727,736 - 7,747,084 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2128,008,199 - 8,027,525 (+)NCBISscrofa10.2Sscrofa10.2susScr3
VCF1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11648,404,267 - 48,427,455 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1648,404,352 - 48,425,279 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366607719,225,532 - 19,248,764 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Vcf1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248013,295,258 - 3,312,124 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Vcf1
117 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:255
Count of miRNA genes:186
Interacting mature miRNAs:212
Transcripts:ENSRNOT00000004001
Prediction methods:Miranda, Rnahybrid
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.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1354641Bvd2Brain ventricular dilatation QTL 26.360.001brain ventricle morphology trait (VT:0000822)hydrocephalus severity score (CMO:0001881)1093223816107057807Rat
61449Ciaa2CIA Autoantibody QTL 27.1blood autoantibody amount (VT:0003725)calculated serum anti-type 2 collagen antibody titer (CMO:0001279)1063221094107211142Rat
61325Aia5Adjuvant induced arthritis QTL 50.01joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1023444813104060283Rat
1298078Stresp5Stress response QTL 52.990.00025blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)1042045676104670812Rat
1549831Bss6Bone structure and strength QTL 64lumbar vertebra strength trait (VT:0010574)vertebra ultimate force (CMO:0001678)1057576521102576521Rat
1579915Bp280Blood pressure QTL 2800.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1090404397107211142Rat
70164Bw21Body weight QTL 214.360.00005body mass (VT:0001259)body weight (CMO:0000012)105379749498952626Rat
2298548Neuinf7Neuroinflammation QTL 73.4nervous system integrity trait (VT:0010566)spinal cord RT1-B protein level (CMO:0002132)1072224939107211142Rat
1302404Cia27Collagen induced arthritis QTL 272.60.0045joint integrity trait (VT:0010548)experimental arthritis severity measurement (CMO:0001459)1076452683107211142Rat
2317754Glom25Glomerulus QTL 253.5urine protein amount (VT:0005160)urine protein level (CMO:0000591)1082685200107211142Rat
70168Eae12Experimental allergic encephalomyelitis QTL 120.0009nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)1092238497101012337Rat
1554317Bmd4Bone mineral density QTL 49.40.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)101981604299406971Rat
70171Cari1Carrageenan-induced inflammation QTL 14.90.0005hypodermis integrity trait (VT:0010550)inflammatory exudate volume (CMO:0001429)1053797385107211142Rat
10450493Bp382Blood pressure QTL 3820.002arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1094759759107211142Rat
1578672Bmd16Bone mineral density QTL 166.2femur mineral mass (VT:0010011)compact volumetric bone mineral density (CMO:0001730)1096703043107057807Rat
61354Pia10Pristane induced arthritis QTL 100.01joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1023444813104060283Rat
2313103Bss80Bone structure and strength QTL 8020.0001tibia strength trait (VT:1000284)tibia midshaft endosteal cross-sectional area (CMO:0001716)1062057807107057807Rat
2293646Bss25Bone structure and strength QTL 2510.960.0001femur morphology trait (VT:0000559)femur cross-sectional area (CMO:0001661)1069738412107211142Rat
2303118Mamtr7Mammary tumor resistance QTL 70.003mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)109658275104670812Rat
2300172Bmd57Bone mineral density QTL 579.80.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)1069738412107211142Rat
70193Mcs7Mammary carcinoma susceptibility QTL 72.38mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)1072224939107211142Rat
2313105Bss79Bone structure and strength QTL 791.80.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)1062057807107057807Rat
61363Oia3Oil induced arthritis QTL 30.001joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1087307617107211142Rat
2316949Gluco60Glucose level QTL 603.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1014487011107057807Rat
724530Bp149Blood pressure QTL 1490.0001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1090627439107211142Rat
1300137Bp186Blood pressure QTL 1863.57arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)1090627439107057807Rat
2293663Bss33Bone structure and strength QTL 339.340.0001femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)1069738412107211142Rat
1578663Bss18Bone structure and strength QTL 183.6femur width (VT:1000666)femoral neck width (CMO:0001695)1096703043107057807Rat
2312672Insul15Insulin level QTL 150.01blood insulin amount (VT:0001560)serum insulin level (CMO:0000358)1057134272102134272Rat
6893357Bw102Body weight QTL 1020.50.36body mass (VT:0001259)body weight (CMO:0000012)1080515287101325465Rat
12880384Cm107Cardiac mass QTL 1070.001heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)90404397107211142Rat
12880385Cm108Cardiac mass QTL 1080.001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)90404397107211142Rat
2317029Aia19Adjuvant induced arthritis QTL 192.98joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)1066978955107211142Rat
2303589Bw87Body weight QTL 872body mass (VT:0001259)body weight (CMO:0000012)1081285008107211142Rat
12880396Am13Aortic mass QTL 130.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)1090404397107211142Rat
12880398Kidm67Kidney mass QTL 670.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)1090404397107211142Rat
61387Bp1Blood pressure QTL 15.1arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)1051770177107211142Rat
2317039Aia6Adjuvant induced arthritis QTL 64.31joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)1066978955107211142Rat
12880395Cm109Cardiac mass QTL 1090.001heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)1090404397107211142Rat
61396Bp9Blood pressure QTL 94.80.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1068420376107211142Rat
634320Niddm49Non-insulin dependent diabetes mellitus QTL 494.41blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)1088539139107211142Rat
1331791Cm31Cardiac mass QTL 313.84606heart mass (VT:0007028)heart wet weight (CMO:0000069)1029299504107211142Rat
10450498Bp384Blood pressure QTL 3840.002arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1067750049107211142Rat
4889492Pancm2Pancreatic morphology QTL 23.2pancreatic beta cell morphology trait (VT:0005217)ratio of insulin-positive cell area to total area of splenic region of pancreas (CMO:0001814)1076748906107211142Rat
6893366Bw106Body weight QTL 1060.30.47body mass (VT:0001259)body weight (CMO:0000012)1070199100107211142Rat
2293698Bss43Bone structure and strength QTL 435.330.0001lumbar vertebra size trait (VT:0010518)lumbar vertebra cross-sectional area (CMO:0001689)1059209888104209888Rat
1576313Pia25Pristane induced arthritis QTL 25joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1096120911104060283Rat
1354608Cm33Cardiac mass QTL 332.8heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)105480929299809292Rat
1558643Cm44Cardiac mass QTL 444.80.0000368heart mass (VT:0007028)heart wet weight (CMO:0000069)106134527699703528Rat
631267Cia20Collagen induced arthritis QTL 203.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1023444813104060283Rat
1576307Cia28Collagen induced arthritis QTL 28joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1096120911104060283Rat
1576308Schws1Schwannoma susceptibility QTL 10.0041nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)1040035094102359817Rat
631269Cia22Collagen induced arthritis QTL 228.9joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1040035094104060283Rat
631268Cia21Collagen induced arthritis QTL 213.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1014487011104060283Rat
631270Cia23Collagen induced arthritis QTL 233.9joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1040035094104060283Rat
6893336Cm75Cardiac mass QTL 750.10.87heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)106134527699703528Rat
2292438Bp311Blood pressure QTL 311arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1076246085107211142Rat
2312662Slep8Serum leptin concentration QTL 80.05blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)1057134272102134272Rat
2292436Bp310Blood pressure QTL 310arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1094759759107211142Rat
1600367Mcs15Mammary carcinoma susceptibility QTL 154.5mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)1085565469103884409Rat
631539Oia6Oil induced arthritis QTL 6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1097010147104670812Rat
631538Oia5Oil induced arthritis QTL 5joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1087055121107211142Rat
61436Cia5Collagen induced arthritis QTL 54.9joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1091228102104060283Rat
1642980Bp300Blood pressure QTL 300arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1068383129107211142Rat
631542Bp82Blood pressure QTL 826.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)102652195798952741Rat
2312668Scl65Serum cholesterol level QTL 650.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)1057134272102134272Rat

Markers in Region
RH127333  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21098,707,436 - 98,707,654 (+)MAPPERmRatBN7.2
Rnor_6.010102,179,511 - 102,179,728NCBIRnor6.0
Rnor_5.010101,859,059 - 101,859,276UniSTSRnor5.0
RGSC_v3.410103,291,253 - 103,291,470UniSTSRGSC3.4
Celera1097,314,450 - 97,314,667UniSTS
Cytogenetic Map10q32UniSTS
Cytogenetic Map10q32.1UniSTS
RH130214  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21098,709,100 - 98,709,281 (+)MAPPERmRatBN7.2
Rnor_6.010102,181,175 - 102,181,355NCBIRnor6.0
Rnor_5.010101,860,723 - 101,860,903UniSTSRnor5.0
RGSC_v3.410103,292,917 - 103,293,097UniSTSRGSC3.4
Celera1097,316,114 - 97,316,294UniSTS
RH 3.4 Map101125.4UniSTS
Cytogenetic Map10q32UniSTS
Cytogenetic Map10q32.1UniSTS
RH133716  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21098,707,253 - 98,708,433 (+)MAPPERmRatBN7.2
Rnor_6.010102,179,328 - 102,180,507NCBIRnor6.0
Rnor_5.010101,858,876 - 101,860,055UniSTSRnor5.0
RGSC_v3.410103,291,070 - 103,292,249UniSTSRGSC3.4
Celera1097,314,267 - 97,315,446UniSTS
RH 3.4 Map101126.6UniSTS
Cytogenetic Map10q32UniSTS
Cytogenetic Map10q32.1UniSTS
RH142070  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21098,719,710 - 98,719,910 (+)MAPPERmRatBN7.2
Rnor_6.010102,191,785 - 102,191,984NCBIRnor6.0
Rnor_5.010101,871,161 - 101,871,360UniSTSRnor5.0
RGSC_v3.410103,303,583 - 103,303,782UniSTSRGSC3.4
Celera1097,326,721 - 97,326,920UniSTS
Cytogenetic Map10q32UniSTS


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 3 43 45 29 19 29 2 5 74 35 41 11 2
Low 12 12 12 6 6 6
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001034958 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006247695 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006247697 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039086764 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039086765 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039086766 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039086767 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039086768 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039086770 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039086771 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063269793 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063269794 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC096468 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC087161 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC105876 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473948 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAXUCZ010000010 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

RefSeq Acc Id: ENSRNOT00000004001   ⟹   ENSRNOP00000004001
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1098,707,410 - 98,728,728 (-)Ensembl
Rnor_6.0 Ensembl10102,179,478 - 102,200,400 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000081519   ⟹   ENSRNOP00000075371
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1098,709,026 - 98,728,728 (-)Ensembl
Rnor_6.0 Ensembl10102,181,279 - 102,200,596 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000111544   ⟹   ENSRNOP00000094438
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1098,709,026 - 98,728,179 (-)Ensembl
RefSeq Acc Id: NM_001034958   ⟹   NP_001030130
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81099,206,549 - 99,227,471 (-)NCBI
mRatBN7.21098,707,404 - 98,728,326 (-)NCBI
Rnor_6.010102,179,478 - 102,200,400 (-)NCBI
Rnor_5.010101,859,026 - 101,879,783 (-)NCBI
RGSC_v3.410103,291,220 - 103,312,198 (-)RGD
Celera1097,314,417 - 97,335,336 (-)RGD
Sequence:
RefSeq Acc Id: XM_006247695   ⟹   XP_006247757
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81099,206,549 - 99,227,471 (-)NCBI
mRatBN7.21098,707,404 - 98,728,461 (-)NCBI
Rnor_6.010102,179,478 - 102,200,488 (-)NCBI
Rnor_5.010101,859,026 - 101,879,783 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006247697   ⟹   XP_006247759
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81099,206,549 - 99,227,244 (-)NCBI
mRatBN7.21098,707,404 - 98,728,099 (-)NCBI
Rnor_6.010102,179,478 - 102,200,148 (-)NCBI
Rnor_5.010101,859,026 - 101,879,783 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039086764   ⟹   XP_038942692
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81099,206,549 - 99,227,309 (-)NCBI
mRatBN7.21098,707,404 - 98,728,144 (-)NCBI
RefSeq Acc Id: XM_039086765   ⟹   XP_038942693
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81099,210,513 - 99,227,471 (-)NCBI
mRatBN7.21098,709,497 - 98,728,486 (-)NCBI
RefSeq Acc Id: XM_039086766   ⟹   XP_038942694
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81099,210,513 - 99,227,244 (-)NCBI
mRatBN7.21098,709,497 - 98,728,144 (-)NCBI
RefSeq Acc Id: XM_039086767   ⟹   XP_038942695
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81099,206,549 - 99,227,471 (-)NCBI
mRatBN7.21098,707,404 - 98,728,485 (-)NCBI
RefSeq Acc Id: XM_039086768   ⟹   XP_038942696
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81099,206,549 - 99,227,393 (-)NCBI
mRatBN7.21098,707,404 - 98,728,170 (-)NCBI
RefSeq Acc Id: XM_039086770   ⟹   XP_038942698
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81099,210,513 - 99,227,244 (-)NCBI
mRatBN7.21098,709,497 - 98,728,097 (-)NCBI
RefSeq Acc Id: XM_039086771   ⟹   XP_038942699
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81099,206,549 - 99,227,341 (-)NCBI
mRatBN7.21098,707,404 - 98,728,099 (-)NCBI
RefSeq Acc Id: XM_063269793   ⟹   XP_063125863
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81099,220,281 - 99,227,471 (-)NCBI
RefSeq Acc Id: XM_063269794   ⟹   XP_063125864
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81099,220,289 - 99,227,244 (-)NCBI
RefSeq Acc Id: NP_001030130   ⟸   NM_001034958
- UniProtKB: G3V6D5 (UniProtKB/TrEMBL),   A6HKG5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006247757   ⟸   XM_006247695
- Peptide Label: isoform X1
- UniProtKB: A0A0G2KAE7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006247759   ⟸   XM_006247697
- Peptide Label: isoform X7
- Sequence:
RefSeq Acc Id: ENSRNOP00000004001   ⟸   ENSRNOT00000004001
RefSeq Acc Id: ENSRNOP00000075371   ⟸   ENSRNOT00000081519
RefSeq Acc Id: XP_038942695   ⟸   XM_039086767
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038942696   ⟸   XM_039086768
- Peptide Label: isoform X6
- UniProtKB: A6HKG6 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038942692   ⟸   XM_039086764
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038942699   ⟸   XM_039086771
- Peptide Label: isoform X9
RefSeq Acc Id: XP_038942693   ⟸   XM_039086765
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038942694   ⟸   XM_039086766
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038942698   ⟸   XM_039086770
- Peptide Label: isoform X8
RefSeq Acc Id: ENSRNOP00000094438   ⟸   ENSRNOT00000111544
RefSeq Acc Id: XP_063125863   ⟸   XM_063269793
- Peptide Label: isoform X10
RefSeq Acc Id: XP_063125864   ⟸   XM_063269794
- Peptide Label: isoform X11

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-A0A0G2KAE7-F1-model_v2 AlphaFold A0A0G2KAE7 1-203 view protein structure

Transcriptome

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

Promoters
RGD ID:13697869
Promoter ID:EPDNEW_R8394
Type:initiation region
Name:Fam104a_1
Description:family with sequence similarity 104, member A
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_6.010102,200,342 - 102,200,402EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1563409 AgrOrtholog
BioCyc Gene G2FUF-22759 BioCyc
Ensembl Genes ENSRNOG00000002851 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000004001.7 UniProtKB/TrEMBL
  ENSRNOT00000081519.2 UniProtKB/TrEMBL
  ENSRNOT00000111544.1 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7129874 IMAGE-MGC_LOAD
  IMAGE:7135056 IMAGE-MGC_LOAD
InterPro FAM104 UniProtKB/TrEMBL
KEGG Report rno:619573 UniProtKB/TrEMBL
MGC_CLONE MGC:125039 IMAGE-MGC_LOAD
  MGC:95313 IMAGE-MGC_LOAD
NCBI Gene 619573 ENTREZGENE
PANTHER PROTEIN FAM104A UniProtKB/TrEMBL
  PTHR34763 UniProtKB/TrEMBL
Pfam FAM104 UniProtKB/TrEMBL
PhenoGen Vcf1 PhenoGen
RatGTEx ENSRNOG00000002851 RatGTEx
UniProt A0A0G2KAE7 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6GL64_RAT UniProtKB/TrEMBL
  A6HKG5 ENTREZGENE, UniProtKB/TrEMBL
  A6HKG6 ENTREZGENE, UniProtKB/TrEMBL
  G3V6D5 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2023-08-25 Vcf1  VCP nuclear cofactor family member 1  Fam104a  family with sequence similarity 104, member A  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-05 Fam104a  family with sequence similarity 104, member A  LOC619573  hypothetical protein LOC619573  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-02-09 LOC619573  hypothetical protein LOC619573      Symbol and Name status set to provisional 70820 PROVISIONAL