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Rfc1 replication factor C subunit 1 [ Rattus norvegicus (Norway rat) ]

Gene ID: 89809, updated on 27-Nov-2024

Summary

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Official Symbol
Rfc1provided by RGD
Official Full Name
replication factor C subunit 1provided by RGD
Primary source
RGD:620619
See related
EnsemblRapid:ENSRNOG00000002855 AllianceGenome:RGD:620619
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as
Recc1
Summary
Enables DNA binding activity; DNA-binding transcription factor binding activity; and protein domain specific binding activity. Involved in negative regulation of transcription by RNA polymerase II and positive regulation of DNA-templated transcription. Located in nucleus. Part of protein-containing complex. Human ortholog(s) of this gene implicated in West Nile fever and congenital heart disease. Orthologous to human RFC1 (replication factor C subunit 1). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Biased expression in Spleen (RPKM 205.8), Thymus (RPKM 171.6) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Rfc1 in Genome Data Viewer
Location:
14p11
Exon count:
26
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 14 NC_086032.1 (43319768..43395028)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 14 NC_051349.1 (42966279..43041372)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 14 NC_005113.4 (44627528..44702205)

Chromosome 14 - NC_086032.1Genomic Context describing neighboring genes Neighboring gene klotho beta Neighboring gene 40S ribosomal protein S13 pseudogene Neighboring gene ribosomal protein L32 like 5 Neighboring gene small nucleolar RNA SNORA77 Neighboring gene WD repeat domain 19 Neighboring gene heterogeneous nuclear ribonucleoprotein A1, pseudogene 12

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
  • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
  • BioProject: PRJNA238328
  • Publication: PMID 24510058
  • Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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Related articles in PubMed

  1. Dysautonomia in RFC1-related disorder: Clinical and neurophysiological evaluation. Schmitt GDS, et al. Clin Neurophysiol, 2022 Oct. PMID 35970061
  2. Cerebellar ataxia, neuropathy, vestibular areflexia syndrome due to RFC1 repeat expansion. Cortese A, et al. Brain, 2020 Feb 1. PMID 32040566, Free PMC Article
  3. Idiopathic Pulmonary Arterial Hypertension: Network-Based Integration of Multi-Omics Data Reveals New Molecular Signatures and Candidate Drugs. Kasavi C. OMICS, 2023 Jul. PMID 37410515
  4. Modulation of the DNA repair system and ATR-p53 mediated apoptosis is relevant for tributyltin-induced genotoxic effects in human hepatoma G2 cells. Li B, et al. J Environ Sci (China), 2015 Jan 1. PMID 25597668
  5. Detecting maternal-fetal genotype interactions associated with conotruncal heart defects: a haplotype-based analysis with penalized logistic regression. Li M, et al. Genet Epidemiol, 2014 Apr. PMID 24585533, Free PMC Article

See all (21) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Placental Rfc1 transport during pregnancy is reported.
    Title: Placental folate transport during pregnancy.
Submit: New GeneRIF Correction

Pathways from PubChem

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General gene information

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Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables ATP binding IEA
Inferred from Electronic Annotation
more info
  
enables ATP hydrolysis activity IEA
Inferred from Electronic Annotation
more info
  
enables DNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables DNA clamp loader activity IEA
Inferred from Electronic Annotation
more info
  
enables DNA clamp unloader activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables DNA clamp unloader activity ISO
Inferred from Sequence Orthology
more info
  
enables DNA-binding transcription factor binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables double-stranded DNA binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables protein domain specific binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables sequence-specific DNA binding IDA
Inferred from Direct Assay
more info
 PubMed 
Process Evidence Code Pubs
involved_in DNA clamp unloading IEA
Inferred from Electronic Annotation
more info
  
involved_in DNA repair IEA
Inferred from Electronic Annotation
more info
  
involved_in DNA-templated DNA replication ISO
Inferred from Sequence Orthology
more info
  
involved_in negative regulation of DNA-templated transcription IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in negative regulation of transcription by RNA polymerase II IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in positive regulation of DNA-templated transcription IMP
Inferred from Mutant Phenotype
more info
 PubMed 
Component Evidence Code Pubs
part_of DNA replication factor C complex ISO
Inferred from Sequence Orthology
more info
  
part_of Elg1 RFC-like complex ISO
Inferred from Sequence Orthology
more info
  
located_in nucleoplasm IEA
Inferred from Electronic Annotation
more info
  
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
  
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleus IDA
Inferred from Direct Assay
more info
 PubMed 
located_in nucleus ISO
Inferred from Sequence Orthology
more info
  
part_of protein-containing complex IDA
Inferred from Direct Assay
more info
 PubMed 

General protein information

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Preferred Names
replication factor C subunit 1
Names
replication factor C (activator 1) 1
replication factor C 1

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_053547.1 → NP_445999.1  replication factor C subunit 1

    Status: VALIDATED

    Source sequence(s)
    AF030050, AF059678, AW144844, BM385730, BM391856, CB608083, CO559697, CV110819
    UniProtKB/TrEMBL
    D3ZFT1
    Related
    ENSRNOP00000069524.3, ENSRNOT00000088674.3
    Conserved Domains (4) summary
    smart00382
    Location:630 → 760
    AAA; ATPases associated with a variety of cellular activities
    cd00027
    Location:404 → 475
    BRCT; Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain. The BRCT domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo ...
    pfam00004
    Location:630 → 758
    AAA; ATPase family associated with various cellular activities (AAA)
    pfam08519
    Location:897 → 1050
    RFC1; Replication factor RFC1 C terminal domain

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCr8

Genomic

  1. NC_086032.1 Reference GRCr8

    Range
    43319768..43395028
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_063273687.1 → XP_063129757.1  replication factor C subunit 1 isoform X1

  2. XM_039092517.2 → XP_038948445.1  replication factor C subunit 1 isoform X5

    UniProtKB/TrEMBL
    D3ZFT1
    Conserved Domains (5) summary
    PTZ00121
    Location:19 → 563
    PTZ00121; MAEBL; Provisional
    PRK04195
    Location:567 → 986
    PRK04195; replication factor C large subunit; Provisional
    PRK06195
    Location:312 → 476
    PRK06195; DNA polymerase III subunit epsilon; Validated
    cd17752
    Location:398 → 476
    BRCT_RFC1; BRCT domain of replication factor C subunit 1 (RFC1) and similar proteins
    pfam08519
    Location:898 → 1051
    RFC1; Replication factor RFC1 C terminal domain

  3. XM_039092518.2 → XP_038948446.1  replication factor C subunit 1 isoform X6

    UniProtKB/TrEMBL
    A6JDF1, D3ZFT1
    Related
    ENSRNOP00000003907.7, ENSRNOT00000003907.9
    Conserved Domains (5) summary
    PTZ00121
    Location:19 → 563
    PTZ00121; MAEBL; Provisional
    PRK04195
    Location:567 → 986
    PRK04195; replication factor C large subunit; Provisional
    PRK06195
    Location:312 → 476
    PRK06195; DNA polymerase III subunit epsilon; Validated
    cd17752
    Location:398 → 476
    BRCT_RFC1; BRCT domain of replication factor C subunit 1 (RFC1) and similar proteins
    pfam08519
    Location:898 → 1051
    RFC1; Replication factor RFC1 C terminal domain

  4. XM_063273690.1 → XP_063129760.1  replication factor C subunit 1 isoform X3

  5. XM_039092519.2 → XP_038948447.1  replication factor C subunit 1 isoform X7

    UniProtKB/TrEMBL
    D3ZFT1
    Conserved Domains (5) summary
    PTZ00121
    Location:19 → 563
    PTZ00121; MAEBL; Provisional
    PRK04195
    Location:567 → 985
    PRK04195; replication factor C large subunit; Provisional
    PRK06195
    Location:312 → 476
    PRK06195; DNA polymerase III subunit epsilon; Validated
    cd17752
    Location:398 → 476
    BRCT_RFC1; BRCT domain of replication factor C subunit 1 (RFC1) and similar proteins
    pfam08519
    Location:897 → 1050
    RFC1; Replication factor RFC1 C terminal domain

  6. XM_039092520.2 → XP_038948448.1  replication factor C subunit 1 isoform X10

    UniProtKB/TrEMBL
    D3ZFT1
    Conserved Domains (5) summary
    PTZ00121
    Location:19 → 563
    PTZ00121; MAEBL; Provisional
    PRK04195
    Location:567 → 985
    PRK04195; replication factor C large subunit; Provisional
    PRK06195
    Location:312 → 476
    PRK06195; DNA polymerase III subunit epsilon; Validated
    cd17752
    Location:398 → 476
    BRCT_RFC1; BRCT domain of replication factor C subunit 1 (RFC1) and similar proteins
    pfam08519
    Location:897 → 1050
    RFC1; Replication factor RFC1 C terminal domain

  7. XM_063273689.1 → XP_063129759.1  replication factor C subunit 1 isoform X2

  8. XM_063273692.1 → XP_063129762.1  replication factor C subunit 1 isoform X8

  9. XM_063273691.1 → XP_063129761.1  replication factor C subunit 1 isoform X4

  10. XM_006250972.5 → XP_006251034.1  replication factor C subunit 1 isoform X9

    UniProtKB/TrEMBL
    D3ZFT1
    Conserved Domains (4) summary
    smart00382
    Location:629 → 759
    AAA; ATPases associated with a variety of cellular activities
    cd00027
    Location:404 → 475
    BRCT; Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain. The BRCT domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo ...
    pfam00004
    Location:629 → 757
    AAA; ATPase family associated with various cellular activities (AAA)
    pfam08519
    Location:896 → 1049
    RFC1; Replication factor RFC1 C terminal domain

  11. XM_008770162.4 → XP_008768384.1  replication factor C subunit 1 isoform X11

    UniProtKB/TrEMBL
    D3ZFT1
    Conserved Domains (4) summary
    smart00382
    Location:629 → 759
    AAA; ATPases associated with a variety of cellular activities
    cd00027
    Location:404 → 475
    BRCT; Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain. The BRCT domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo ...
    pfam00004
    Location:629 → 757
    AAA; ATPase family associated with various cellular activities (AAA)
    pfam08519
    Location:896 → 1049
    RFC1; Replication factor RFC1 C terminal domain

  12. XM_063273693.1 → XP_063129763.1  replication factor C subunit 1 isoform X12

  13. XM_063273694.1 → XP_063129764.1  replication factor C subunit 1 isoform X13

  14. XM_063273695.1 → XP_063129765.1  replication factor C subunit 1 isoform X14

Nucleotide Protein Strain
Heading Accession and Version

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