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RCC1 regulator of chromosome condensation 1 [ Homo sapiens (human) ]

Gene ID: 1104, updated on 16-Sep-2019

Summary

Official Symbol
RCC1provided by HGNC
Official Full Name
regulator of chromosome condensation 1provided by HGNC
Primary source
HGNC:HGNC:1913
See related
Ensembl:ENSG00000180198 MIM:179710
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
CHC1; RCC1-I; SNHG3-RCC1
Expression
Ubiquitous expression in testis (RPKM 13.1), lymph node (RPKM 11.7) and 25 other tissues See more
Orthologs

Genomic context

See RCC1 in Genome Data Viewer
Location:
1p35.3
Exon count:
15
Annotation release Status Assembly Chr Location
109.20190905 current GRCh38.p13 (GCF_000001405.39) 1 NC_000001.11 (28505943..28539300)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (28832455..28865708)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene Sharpr-MPRA regulatory region 70 Neighboring gene phosphatase and actin regulator 4 Neighboring gene RNA, U6atac small nuclear 27, pseudogene Neighboring gene small nucleolar RNA, H/ACA box 73A Neighboring gene small nucleolar RNA, H/ACA box 73B Neighboring gene small nucleolar RNA host gene 3 Neighboring gene peroxiredoxin 3 pseudogene 2 Neighboring gene Sharpr-MPRA regulatory region 11844 Neighboring gene tRNA selenocysteine 1 associated protein 1 Neighboring gene small nucleolar RNA, C/D box 99 Neighboring gene small nucleolar RNA host gene 12

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
retropepsin gag-pol Positional proteomics analysis identifies the cleavage of human regulator of chromosome condensation 1 (RCC1) at amino acid residues 38-39 by the HIV-1 protease PubMed

Go to the HIV-1, Human Interaction Database

Pathways from BioSystems

  • Disease, organism-specific biosystem (from REACTOME)
    Disease, organism-specific biosystemBiological processes are captured in Reactome by identifying the molecules (DNA, RNA, protein, small molecules) involved in them and describing the details of their interactions. From this molecular ...
  • HIV Infection, organism-specific biosystem (from REACTOME)
    HIV Infection, organism-specific biosystemThe global pandemic of Human Immunodeficiency Virus (HIV) infection has resulted in tens of millions of people infected by the virus and millions more affected. UNAIDS estimates around 40 million ...
  • HIV Life Cycle, organism-specific biosystem (from REACTOME)
    HIV Life Cycle, organism-specific biosystemThe life cycle of HIV-1 is divided into early and late phases, shown schematically in the figure. In the early phase, an HIV-1 virion binds to receptors and co-receptors on the human host cell surfac...
  • Host Interactions of HIV factors, organism-specific biosystem (from REACTOME)
    Host Interactions of HIV factors, organism-specific biosystemLike all viruses, HIV-1 must co-opt the host cell macromolecular transport and processing machinery. HIV-1 Vpr and Rev proteins play key roles in this co-optation. Efficient HIV-1 replication likewis...
  • Infectious disease, organism-specific biosystem (from REACTOME)
    Infectious disease, organism-specific biosystem
    Infectious disease
  • Interactions of Rev with host cellular proteins, organism-specific biosystem (from REACTOME)
    Interactions of Rev with host cellular proteins, organism-specific biosystemIn order to facilitate the transport of incompletely spliced HIV-1 transcripts, Rev shuttles between the cytoplasm and nucleus using host cell transport mechanisms (reviewed in Li et al. 2005). Nucl...
  • Late Phase of HIV Life Cycle, organism-specific biosystem (from REACTOME)
    Late Phase of HIV Life Cycle, organism-specific biosystemThe late phase of the HIV-1 life cycle includes the regulated expression of the HIV gene products and the assembly of viral particles. The assembly of viral particles will be covered in a later relea...
  • Nuclear import of Rev protein, organism-specific biosystem (from REACTOME)
    Nuclear import of Rev protein, organism-specific biosystemNuclear import of Rev involves the cellular proteins including importin-beta and B23 and is mediated by an arginine-rich nuclear localization signal (NLS) within the RNA binding domain of the Rev pr...
  • Rev-mediated nuclear export of HIV RNA, organism-specific biosystem (from REACTOME)
    Rev-mediated nuclear export of HIV RNA, organism-specific biosystemThe HIV-1 genome contains 9 genes encoded by a single transcript. In order for the virus to replicate, unspliced, singly-spliced and fully spliced viral mRNA must be exported from the nucleus. The H...
  • Validated targets of C-MYC transcriptional activation, organism-specific biosystem (from Pathway Interaction Database)
    Validated targets of C-MYC transcriptional activation, organism-specific biosystem
    Validated targets of C-MYC transcriptional activation

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Readthrough RCC1

Included gene: SNHG3

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
Ran GTPase binding IDA
Inferred from Direct Assay
more info
PubMed 
Ran guanyl-nucleotide exchange factor activity IDA
Inferred from Direct Assay
more info
PubMed 
Ran guanyl-nucleotide exchange factor activity IMP
Inferred from Mutant Phenotype
more info
PubMed 
Ran guanyl-nucleotide exchange factor activity TAS
Traceable Author Statement
more info
 
chromatin binding IDA
Inferred from Direct Assay
more info
PubMed 
histone binding IDA
Inferred from Direct Assay
more info
PubMed 
nucleosomal DNA binding IDA
Inferred from Direct Assay
more info
PubMed 
nucleosome binding IMP
Inferred from Mutant Phenotype
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
protein heterodimerization activity IPI
Inferred from Physical Interaction
more info
PubMed 
sulfate binding IDA
Inferred from Direct Assay
more info
PubMed 
Process Evidence Code Pubs
G1/S transition of mitotic cell cycle IMP
Inferred from Mutant Phenotype
more info
PubMed 
cell division IEA
Inferred from Electronic Annotation
more info
 
chromosome segregation IMP
Inferred from Mutant Phenotype
more info
PubMed 
mitotic spindle organization IDA
Inferred from Direct Assay
more info
PubMed 
protein heterotetramerization IDA
Inferred from Direct Assay
more info
PubMed 
regulation of mitotic nuclear division IDA
Inferred from Direct Assay
more info
PubMed 
spindle assembly IMP
Inferred from Mutant Phenotype
more info
PubMed 
viral process TAS
Traceable Author Statement
more info
 
Component Evidence Code Pubs
chromatin IDA
Inferred from Direct Assay
more info
PubMed 
condensed nuclear chromosome IDA
Inferred from Direct Assay
more info
PubMed 
cytoplasm IDA
Inferred from Direct Assay
more info
PubMed 
nuclear chromatin IDA
Inferred from Direct Assay
more info
PubMed 
nuclear membrane IDA
Inferred from Direct Assay
more info
 
nucleoplasm IDA
Inferred from Direct Assay
more info
 
nucleoplasm TAS
Traceable Author Statement
more info
 
nucleus HDA PubMed 
nucleus IDA
Inferred from Direct Assay
more info
PubMed 
protein-containing complex IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
regulator of chromosome condensation
Names
SNHG3-RCC1 readthrough
cell cycle regulatory protein
guanine nucleotide-releasing protein

NCBI Reference Sequences (RefSeq)

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_001048194.3NP_001041659.1  regulator of chromosome condensation isoform a

    See identical proteins and their annotated locations for NP_001041659.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes the longest isoform (a).
    Source sequence(s)
    AL513497, BC069198, BF590413, X12654
    Consensus CDS
    CCDS41295.1
    UniProtKB/Swiss-Prot
    P18754
    UniProtKB/TrEMBL
    A0A0S2Z404
    Related
    ENSP00000362937.3, ENST00000373831.7
    Conserved Domains (1) summary
    pfam00415
    Location:394445
    RCC1; Regulator of chromosome condensation (RCC1) repeat
  2. NM_001048195.3NP_001041660.1  regulator of chromosome condensation isoform b

    See identical proteins and their annotated locations for NP_001041660.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) uses an alternate in-frame splice site in the 5' coding region, compared to variant 1, resulting in an isoform (b) that is shorter than isoform a.
    Source sequence(s)
    AL513497, BF590413, BM546148, BQ436549, X12654
    UniProtKB/Swiss-Prot
    P18754
    UniProtKB/TrEMBL
    A0A0S2Z3I4
    Related
    ENSP00000413644.1, ENST00000411533.5
    Conserved Domains (2) summary
    COG5184
    Location:21435
    ATS1; Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell cycle control, cell division, chromosome partitioning, Cytoskeleton]
    pfam00415
    Location:380431
    RCC1; Regulator of chromosome condensation (RCC1) repeat
  3. NM_001048199.2NP_001041664.1  regulator of chromosome condensation isoform c

    See identical proteins and their annotated locations for NP_001041664.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) differs in the 5' UTR and lacks an alternate in-frame exon in the 5' coding region, compared to variant 1, resulting in an isoform (c) that is shorter than isoform a. Both variants 3 and 4 encode the same isoform. This variant is a read-through transcript between the upstream non-coding SNHG3 locus (GeneID:8420) and the downstream RCC1 locus (GeneID:1104).
    Source sequence(s)
    BC007300, BF590413, BF667678, BU501614
    Consensus CDS
    CCDS323.1
    UniProtKB/Swiss-Prot
    P18754
    UniProtKB/TrEMBL
    Q5T081
    Related
    ENSP00000381931.2, ENST00000398958.6
    Conserved Domains (1) summary
    cl27697
    Location:4418
    RCC1; Regulator of chromosome condensation (RCC1) repeat
  4. NM_001269.5NP_001260.1  regulator of chromosome condensation isoform c

    See identical proteins and their annotated locations for NP_001260.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) lacks an alternate in-frame exon in the 5' coding region, compared to variant 1, resulting in an isoform (c) that is shorter than isoform a. Both variants 3 and 4 encode the same isoform.
    Source sequence(s)
    AL513497, BF590413, X12654
    Consensus CDS
    CCDS323.1
    UniProtKB/Swiss-Prot
    P18754
    UniProtKB/TrEMBL
    Q5T081
    Related
    ENSP00000362938.1, ENST00000373832.5
    Conserved Domains (1) summary
    cl27697
    Location:4418
    RCC1; Regulator of chromosome condensation (RCC1) repeat

RNA

  1. NR_030725.2 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (5) includes alternate 5' exon structure, compared to variant 1. This variant is a read-through transcript between the upstream non-coding SNHG3 locus (GeneID:8420) and the downstream RCC1 locus (GeneID:1104). This variant is represented as non-coding due to the presence of an upstream ORF that is predicted to inhibit the translation of the longest ORF, as found in variant 1. Translation of the upstream ORF would render the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AL513497, BF590413, BU622451, BX109495, CB985055, X06130
  2. NR_030726.2 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (6) includes alternate 5' exon structure, compared to variant 1. This variant is a read-through transcript between the upstream non-coding SNHG3 locus (GeneID:8420) and the downstream RCC1 locus (GeneID:1104). This variant is represented as non-coding due to the presence of an upstream ORF that is predicted to inhibit the translation of the longest ORF, as found in variant 1. Translation of the upstream ORF would render the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AL513497, BC007300, BC036903, BF590413, CB985055

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109 details...Open this link in a new tab

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000001.11 Reference GRCh38.p13 Primary Assembly

    Range
    28505943..28539300
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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