Rfc1 (replication factor C subunit 1) - Rat Genome Database

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Gene: Rfc1 (replication factor C subunit 1) Rattus norvegicus
Analyze
Symbol: Rfc1
Name: replication factor C subunit 1
RGD ID: 620619
Description: Enables double-stranded DNA binding activity; protein domain specific binding activity; and sequence-specific DNA binding activity. Involved in negative regulation of transcription by RNA polymerase II and positive regulation of DNA-templated transcription. Located in cytoplasm and nucleolus. Part of protein-containing complex. Human ortholog(s) of this gene implicated in West Nile fever. Orthologous to human RFC1 (replication factor C subunit 1); PARTICIPATES IN FasL mediated signaling pathway; mismatch repair pathway; nucleotide excision repair pathway; INTERACTS WITH (+)-schisandrin B; 2,2',5,5'-tetrachlorobiphenyl; atrazine.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: Recc1; replication factor C; replication factor C (activator 1) 1; replication factor C 1
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21442,966,279 - 43,041,372 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1442,966,324 - 43,041,370 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1443,320,456 - 43,395,313 (+)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.01444,620,383 - 44,695,254 (+)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.01443,100,518 - 43,175,387 (+)NCBIRnor_WKY
Rnor_6.01444,627,528 - 44,702,205 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1444,580,216 - 44,702,203 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01444,441,565 - 44,516,385 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41445,665,717 - 45,741,391 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11445,668,107 - 45,730,578 (+)NCBI
Celera1442,109,684 - 42,184,882 (+)NCBICelera
Cytogenetic Map14p11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Cerebellar ataxia, neuropathy, vestibular areflexia syndrome due to RFC1 repeat expansion. Cortese A, etal., Brain. 2020 Feb 1;143(2):480-490. doi: 10.1093/brain/awz418.
2. Biallelic expansion of an intronic repeat in RFC1 is a common cause of late-onset ataxia. Cortese A, etal., Nat Genet. 2019 Apr;51(4):649-658. doi: 10.1038/s41588-019-0372-4. Epub 2019 Mar 29.
3. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
4. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
5. Replication clamps and clamp loaders. Hedglin M, etal., Cold Spring Harb Perspect Biol. 2013 Apr 1;5(4):a010165. doi: 10.1101/cshperspect.a010165.
6. Functional interaction of bZIP proteins and the large subunit of replication factor C in liver and adipose cells. Hong S, etal., J Biol Chem. 2001 Jul 27;276(30):28098-105. Epub 2001 May 16.
7. Nuclear recruitment of A1p145 subunit of replication factor C in the early G1 phase of the cell cycle in Faza 567 hepatoma cell line and hepatocyte primary cultures. Levavasseur F, etal., FEBS Lett. 1995 Apr 17;363(1-2):132-6.
8. Mechanisms and functions of DNA mismatch repair. Li GM Cell Res. 2008 Jan;18(1):85-98.
9. Genetic variants and susceptibility to neurological complications following West Nile virus infection. Loeb M, etal., J Infect Dis. 2011 Oct 1;204(7):1031-7. doi: 10.1093/infdis/jir493.
10. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
11. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
12. Molecular cloning of a novel transcriptional repressor protein of the rat type 1 vasoactive intestinal peptide receptor gene. Pei L J Biol Chem 1998 Jul 31;273(31):19902-8.
13. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
14. PID Annotation Import Pipeline Pipeline to import Pathway Interaction Database annotations from NCI into RGD
15. SMPDB Annotation Import Pipeline Pipeline to import SMPDB annotations from SMPDB into RGD
16. GOA pipeline RGD automated data pipeline
17. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
18. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
19. A multifunctional transcription factor (A1p145) regulates the smooth muscle phenotype in mesangial cells. Takeoka H, etal., Biochem Biophys Res Commun. 1998 Nov 18;252(2):290-5.
Additional References at PubMed
PMID:8889548   PMID:9488738   PMID:11555636   PMID:18776693   PMID:19056867   PMID:23277426  


Genomics

Comparative Map Data
Rfc1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21442,966,279 - 43,041,372 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1442,966,324 - 43,041,370 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1443,320,456 - 43,395,313 (+)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.01444,620,383 - 44,695,254 (+)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.01443,100,518 - 43,175,387 (+)NCBIRnor_WKY
Rnor_6.01444,627,528 - 44,702,205 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1444,580,216 - 44,702,203 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01444,441,565 - 44,516,385 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41445,665,717 - 45,741,391 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11445,668,107 - 45,730,578 (+)NCBI
Celera1442,109,684 - 42,184,882 (+)NCBICelera
Cytogenetic Map14p11NCBI
RFC1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38439,287,456 - 39,366,362 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl439,287,456 - 39,366,375 (-)EnsemblGRCh38hg38GRCh38
GRCh37439,289,076 - 39,367,982 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36438,965,471 - 39,044,390 (-)NCBINCBI36Build 36hg18NCBI36
Build 34439,111,641 - 39,190,561NCBI
Celera439,726,898 - 39,805,822 (-)NCBICelera
Cytogenetic Map4p14NCBI
HuRef438,614,348 - 38,693,267 (-)NCBIHuRef
CHM1_1439,288,683 - 39,367,619 (-)NCBICHM1_1
T2T-CHM13v2.0439,257,079 - 39,336,004 (-)NCBIT2T-CHM13v2.0
Rfc1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39565,419,195 - 65,495,960 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl565,419,193 - 65,493,013 (-)EnsemblGRCm39 Ensembl
GRCm38565,261,852 - 65,338,617 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl565,261,850 - 65,335,670 (-)EnsemblGRCm38mm10GRCm38
MGSCv37565,653,091 - 65,726,878 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36565,540,993 - 65,614,740 (-)NCBIMGSCv36mm8
Celera562,539,065 - 62,612,753 (-)NCBICelera
Cytogenetic Map5C3.1NCBI
cM Map533.61NCBI
Rfc1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554437,983,840 - 8,051,089 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554437,969,117 - 8,051,734 (+)NCBIChiLan1.0ChiLan1.0
RFC1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1439,471,719 - 39,548,548 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl439,471,719 - 39,548,548 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0433,618,590 - 33,695,999 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
RFC1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1373,062,292 - 73,136,576 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl373,062,329 - 73,135,096 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha375,609,032 - 75,683,153 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0373,835,991 - 73,910,047 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl373,836,047 - 73,910,037 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1373,102,007 - 73,176,125 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0373,248,932 - 73,323,088 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0373,635,081 - 73,709,119 (+)NCBIUU_Cfam_GSD_1.0
Rfc1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440528539,288,988 - 39,362,991 (+)NCBIHiC_Itri_2
SpeTri2.0NW_0049364826,938,138 - 7,009,144 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
RFC1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl830,552,400 - 30,635,867 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1830,552,369 - 30,635,932 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2832,169,923 - 32,250,884 (-)NCBISscrofa10.2Sscrofa10.2susScr3
RFC1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12710,936,445 - 11,013,457 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2710,936,461 - 11,006,679 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604757,331,286 - 57,423,803 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Rfc1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248704,901,895 - 4,985,654 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248704,901,963 - 4,985,633 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Position Markers
RH132779  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21443,041,063 - 43,041,273 (+)MAPPERmRatBN7.2
Rnor_6.01444,701,897 - 44,702,106NCBIRnor6.0
Rnor_5.01444,516,077 - 44,516,286UniSTSRnor5.0
RGSC_v3.41445,741,083 - 45,741,292UniSTSRGSC3.4
Celera1442,184,574 - 42,184,783UniSTS
Cytogenetic Map14p11UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1581500Renag1Renal agenesis QTL 1kidney development trait (VT:0000527)percentage of study population developing unilateral renal agenesis during a period of time (CMO:0000940)14817066868298175Rat
1358296Ael3Aortic elastin QTL 33.70.00051aorta elastin amount (VT:0003905)aortic elastin14826709053267090Rat
2302045Pia39Pristane induced arthritis QTL 394.90.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin G2a level (CMO:0002116)14826709053267090Rat
631839Niddm37Non-insulin dependent diabetes mellitus QTL 373.37blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)141103062295876975Rat
2313397Coatc1Coat color QTL1coat/hair pigmentation trait (VT:0010463)coat/hair color measurement (CMO:0001808)141854133263541332Rat
10755459Coatc15Coat color QTL 150.01681coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)141983694464836944Rat
70187Pancm5Pancreatic morphology QTL 516.7pancreas mass (VT:0010144)pancreas weight to body weight ratio (CMO:0000630)143032009280829842Rat
1300154Bp189Blood pressure QTL 1893.04arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)143088377768757901Rat
2313048Bss84Bone structure and strength QTL 843.10.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)143766971982669719Rat
2313084Bss83Bone structure and strength QTL 832.90.0001tibia size trait (VT:0100001)tibia midshaft endosteal cross-sectional area (CMO:0001716)143766971982669719Rat
2313089Bss81Bone structure and strength QTL 813.40.0001body length (VT:0001256)body length, nose to rump (CMO:0000079)143766971982669719Rat
2313100Bss82Bone structure and strength QTL 8230.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)143766971982669719Rat
738037Hcas6Hepatocarcinoma susceptibility QTL 62.93liver integrity trait (VT:0010547)liver nonremodeling tumorous lesion volume to total liver volume ratio (CMO:0001464)143905723783368335Rat
70214Niddm28Non-insulin dependent diabetes mellitus QTL 284.06blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)143999825175582726Rat
631523Pia13Pristane induced arthritis QTL 133.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)144079346098037301Rat
1300136Rf22Renal function QTL 223.9renal blood flow trait (VT:2000006)absolute change in renal vascular resistance (CMO:0001900)144226252995023211Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:293
Count of miRNA genes:188
Interacting mature miRNAs:222
Transcripts:ENSRNOT00000003907
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 3 35 57 41 19 41 6 8 74 35 41 11 6
Low 8 2 3 2
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_053547 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006250972 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008770161 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008770162 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039092517 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039092518 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039092519 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039092520 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039092521 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AF030050 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF059678 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AW144844 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BM385730 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BM391856 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CB608083 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473981 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CO559697 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CV110819 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000252 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000003907   ⟹   ENSRNOP00000003907
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1442,966,350 - 43,041,370 (+)Ensembl
Rnor_6.0 Ensembl1444,580,216 - 44,702,203 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000088674   ⟹   ENSRNOP00000069524
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1442,966,324 - 43,039,843 (+)Ensembl
Rnor_6.0 Ensembl1444,580,216 - 44,689,001 (+)Ensembl
RefSeq Acc Id: NM_053547   ⟹   NP_445999
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21442,966,350 - 43,041,372 (+)NCBI
Rnor_6.01444,627,591 - 44,702,205 (+)NCBI
Rnor_5.01444,441,565 - 44,516,385 (+)NCBI
RGSC_v3.41445,665,717 - 45,741,391 (+)RGD
Celera1442,109,684 - 42,184,882 (+)RGD
Sequence:
RefSeq Acc Id: XM_006250972   ⟹   XP_006251034
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21442,966,279 - 43,041,371 (+)NCBI
Rnor_6.01444,627,528 - 44,700,959 (+)NCBI
Rnor_5.01444,441,565 - 44,516,385 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008770162   ⟹   XP_008768384
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21442,966,279 - 43,040,645 (+)NCBI
Rnor_6.01444,627,528 - 44,700,959 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039092517   ⟹   XP_038948445
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21442,966,279 - 43,041,371 (+)NCBI
RefSeq Acc Id: XM_039092518   ⟹   XP_038948446
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21442,966,279 - 43,041,371 (+)NCBI
RefSeq Acc Id: XM_039092519   ⟹   XP_038948447
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21442,966,279 - 43,041,371 (+)NCBI
RefSeq Acc Id: XM_039092520   ⟹   XP_038948448
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21442,966,279 - 43,041,371 (+)NCBI
RefSeq Acc Id: XM_039092521   ⟹   XP_038948449
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21442,966,279 - 43,041,371 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_445999   ⟸   NM_053547
- UniProtKB: O88461 (UniProtKB/TrEMBL),   Q9Z2R7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006251034   ⟸   XM_006250972
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_008768384   ⟸   XM_008770162
- Peptide Label: isoform X6
- Sequence:
RefSeq Acc Id: ENSRNOP00000003907   ⟸   ENSRNOT00000003907
RefSeq Acc Id: ENSRNOP00000069524   ⟸   ENSRNOT00000088674
RefSeq Acc Id: XP_038948445   ⟸   XM_039092517
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038948446   ⟸   XM_039092518
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038948447   ⟸   XM_039092519
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038948448   ⟸   XM_039092520
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038948449   ⟸   XM_039092521
- Peptide Label: isoform X7
Protein Domains
BRCT

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZFT1-F1-model_v2 AlphaFold D3ZFT1 1-1131 view protein structure

Transcriptome

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


Strain Variation

Strain Sequence Variants (mRatBN7.2)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN-Lx/CubMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BUF/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
DA/OlaHsd (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE16/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/FarMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB10/IpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF10A/StmMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/NRrrcMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MWF/Hsd (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHR/OlalpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WAG/RijCrl (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
Damaging Variants


Assembly: Rnor_6.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
14 44685459 44685460 C A snv LEW/Crl (RGD)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:620619 AgrOrtholog
BioCyc Gene G2FUF-15740 BioCyc
Ensembl Genes ENSRNOG00000002855 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000003907 ENTREZGENE
  ENSRNOP00000003907.6 UniProtKB/TrEMBL
  ENSRNOP00000069524 ENTREZGENE
  ENSRNOP00000069524.2 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000003907 ENTREZGENE
  ENSRNOT00000003907.8 UniProtKB/TrEMBL
  ENSRNOT00000088674 ENTREZGENE
  ENSRNOT00000088674.2 UniProtKB/TrEMBL
Gene3D-CATH 3.40.50.10190 UniProtKB/TrEMBL
  3.40.50.300 UniProtKB/TrEMBL
InterPro AAA+_ATPase UniProtKB/TrEMBL
  ATPase_AAA_core UniProtKB/TrEMBL
  BRCT UniProtKB/TrEMBL
  BRCT_dom_sf UniProtKB/TrEMBL
  DNA_pol3_clamp-load_cplx_C UniProtKB/TrEMBL
  DNA_replication_fac_C_lsu UniProtKB/TrEMBL
  DNA_replication_fac_RFC1_C UniProtKB/TrEMBL
  P-loop_NTPase UniProtKB/TrEMBL
KEGG Report rno:89809 UniProtKB/TrEMBL
NCBI Gene 89809 ENTREZGENE
Pfam AAA UniProtKB/TrEMBL
  BRCT UniProtKB/TrEMBL
  RFC1 UniProtKB/TrEMBL
PharmGKB RFC1 RGD
PhenoGen Rfc1 PhenoGen
PIRSF RFC1 UniProtKB/TrEMBL
PROSITE BRCT UniProtKB/TrEMBL
SMART AAA UniProtKB/TrEMBL
  BRCT UniProtKB/TrEMBL
Superfamily-SCOP BRCT UniProtKB/TrEMBL
  Pol_clamp_load_C UniProtKB/TrEMBL
  SSF52540 UniProtKB/TrEMBL
UniProt A0A0G2JVK8_RAT UniProtKB/TrEMBL
  D3ZFT1_RAT UniProtKB/TrEMBL
  O88461 ENTREZGENE, UniProtKB/TrEMBL
  Q9Z2R7 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-03-16 Rfc1  replication factor C subunit 1  Rfc1  replication factor C (activator 1) 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-02-22 Rfc1  replication factor C (activator 1) 1  Recc1  replication factor C 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-01-20 Recc1  replication factor C 1    replication factor C  Name updated 1299863 APPROVED
2002-08-07 Recc1  replication factor C      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_homology has 78% identity to differentiation-specific element binding protein 633853