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INIP INTS3 and NABP interacting protein [ Homo sapiens (human) ]

Gene ID: 58493, updated on 27-Nov-2024

Summary

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Official Symbol
INIPprovided by HGNC
Official Full Name
INTS3 and NABP interacting proteinprovided by HGNC
Primary source
HGNC:HGNC:24994
See related
Ensembl:ENSG00000148153 MIM:613273; AllianceGenome:HGNC:24994
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
MISE; SOSSC; SSBIP1; C9orf80; HSPC043; hSSBIP1
Summary
The protein encoded by this gene is a subunit of single-stranded DNA binding complexes that are important for maintaining genome stability. These complexes are involved in G2/M checkpoint control and homologous recombination repair. [provided by RefSeq, Jul 2016]
Expression
Ubiquitous expression in lymph node (RPKM 8.2), colon (RPKM 6.8) and 25 other tissues See more
Orthologs
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Genomic context

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See INIP in Genome Data Viewer
Location:
9q32
Exon count:
7
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 9 NC_000009.12 (112683926..112718117, complement)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 9 NC_060933.1 (124855150..124889339, complement)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 9 NC_000009.11 (115446206..115480397, complement)

Chromosome 9 - NC_000009.12Genomic Context describing neighboring genes Neighboring gene H3K27ac hESC enhancer GRCh37_chr9:115141971-115142570 Neighboring gene hydroxysteroid dehydrogenase like 2 Neighboring gene HSDL2 antisense RNA 1 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28825 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20192 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20193 Neighboring gene KIAA1958 Neighboring gene Sharpr-MPRA regulatory region 4745 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:115309395-115309946 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr9:115309947-115310499 Neighboring gene H3K27ac hESC enhancer GRCh37_chr9:115310500-115311051 Neighboring gene Sharpr-MPRA regulatory region 8480 Neighboring gene NANOG hESC enhancer GRCh37_chr9:115313867-115314374 Neighboring gene ReSE screen-validated silencer GRCh37_chr9:115357836-115358025 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:115380828-115381410 Neighboring gene MPRA-validated peak7319 silencer Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28826 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20194 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28827 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28828 Neighboring gene H3K27ac hESC enhancer GRCh37_chr9:115512887-115513808 Neighboring gene H3K27ac hESC enhancer GRCh37_chr9:115513809-115514728 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr9:115516859-115517473 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:115518123-115518802 Neighboring gene H3K27ac hESC enhancer GRCh37_chr9:115517474-115518087 Neighboring gene SNX30 divergent transcript Neighboring gene Sharpr-MPRA regulatory region 12854 Neighboring gene sorting nexin family member 30 Neighboring gene OCT4-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:115565661-115566288 Neighboring gene OCT4-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:115566289-115566914 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:115572830-115573740 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20196 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28830 Neighboring gene MPRA-validated peak7321 silencer Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20197 Neighboring gene NANOG hESC enhancer GRCh37_chr9:115608506-115609059 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:115609080-115609580 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:115610366-115610938 Neighboring gene H3K27ac hESC enhancer GRCh37_chr9:115628995-115629496 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28831 Neighboring gene solute carrier family 46 member 2

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • 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

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Related articles in PubMed

  1. Biochemical characterization of INTS3 and C9ORF80, two subunits of hNABP1/2 heterotrimeric complex in nucleic acid binding. Vidhyasagar V, et al. Biochem J, 2018 Jan 2. PMID 29150435, Free PMC Article
  2. Structural basis of SOSS1 complex assembly and recognition of ssDNA. Ren W, et al. Cell Rep, 2014 Mar 27. PMID 24630995
  3. INTS3 controls the hSSB1-mediated DNA damage response. Skaar JR, et al. J Cell Biol, 2009 Oct 5. PMID 19786574, Free PMC Article
  4. HSSB1 and hSSB2 form similar multiprotein complexes that participate in DNA damage response. Li Y, et al. J Biol Chem, 2009 Aug 28. PMID 19605351, Free PMC Article
  5. Single-stranded DNA-binding protein hSSB1 is critical for genomic stability. Richard DJ, et al. Nature, 2008 May 29. PMID 18449195

See all (34) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. INTS3, but not C9ORF80, affects the nucleic acid-binding ability of hNABP1 and hNABP2, indicating that INTS3 might regulate hNABP1/hNABP2 biological function, while the role of C9ORF80 remains unknown.
    Title: Biochemical characterization of INTS3 and C9ORF80, two subunits of hNABP1/2 heterotrimeric complex in nucleic acid binding.
  2. hSSBIP1 forms complexes with INTS3/hSSB1 and INTS3/hSSB2 and participates in the DNA damage response
    Title: HSSB1 and hSSB2 form similar multiprotein complexes that participate in DNA damage response.
  3. MISE is part of the INTS3/MISE/hSSB1 (IMS1) complex, which controls the DNA damage response
    Title: INTS3 controls the hSSB1-mediated DNA damage response.
  4. SOSS-C is part of an ssDNA-binding heterotrimeric complex, SOSS which is involved in the maintenance of genome stability.
    Title: SOSS complexes participate in the maintenance of genomic stability.
Submit: New GeneRIF Correction

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Process Evidence Code Pubs
involved_in DNA damage response IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in DNA repair IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in DNA repair IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in double-strand break repair via homologous recombination IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in mitotic G2/M transition checkpoint IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in response to ionizing radiation IMP
Inferred from Mutant Phenotype
more info
 PubMed 
Component Evidence Code Pubs
part_of SOSS complex IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of SOSS complex IDA
Inferred from Direct Assay
more info
 PubMed 
part_of SOSS complex IPI
Inferred from Physical Interaction
more info
 PubMed 
is_active_in nucleoplasm IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleoplasm IDA
Inferred from Direct Assay
more info
  
located_in nucleus IDA
Inferred from Direct Assay
more info
 PubMed 
located_in site of double-strand break IDA
Inferred from Direct Assay
more info
 PubMed 

General protein information

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Preferred Names
SOSS complex subunit C
Names
SSB-interacting protein 1
hSSB-interacting protein 1
minute INTS3/hSSB-associated element
sensor of single-strand DNA complex subunit C
sensor of ssDNA subunit C
single-stranded DNA-binding protein-interacting protein 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_001329585.2 → NP_001316514.1  SOSS complex subunit C isoform b

    Status: REVIEWED

    Source sequence(s)
    AL390067
    Conserved Domains (1) summary
    pfam15925
    Location:15 → 98
    SOSSC; SOSS complex subunit C

  2. NM_001329586.2 → NP_001316515.1  SOSS complex subunit C isoform c

    Status: REVIEWED

    Source sequence(s)
    AL390067

  3. NM_001329587.2 → NP_001316516.1  SOSS complex subunit C isoform d

    Status: REVIEWED

    Source sequence(s)
    AL390067

  4. NM_001329588.2 → NP_001316517.1  SOSS complex subunit C isoform e

    Status: REVIEWED

    Description
    Transcript Variant: This variant (5), as well as variants 6 and 7, encodes isoform e.
    Source sequence(s)
    AL390067
    Consensus CDS
    CCDS87676.1
    UniProtKB/TrEMBL
    X6R8P6
    Conserved Domains (1) summary
    pfam15925
    Location:4 → 71
    SOSSC; SOSS complex subunit C

  5. NM_001329589.2 → NP_001316518.1  SOSS complex subunit C isoform e

    Status: REVIEWED

    Description
    Transcript Variant: This variant (6), as well as variants 5 and 7, encodes isoform e.
    Source sequence(s)
    AL390067
    Consensus CDS
    CCDS87676.1
    UniProtKB/TrEMBL
    X6R8P6
    Related
    ENSP00000363353.1, ENST00000374236.5
    Conserved Domains (1) summary
    pfam15925
    Location:4 → 71
    SOSSC; SOSS complex subunit C

  6. NM_001329590.2 → NP_001316519.1  SOSS complex subunit C isoform e

    Status: REVIEWED

    Description
    Transcript Variant: This variant (7), as well as variants 5 and 6, encodes isoform e.
    Source sequence(s)
    AL390067
    Consensus CDS
    CCDS87676.1
    UniProtKB/TrEMBL
    X6R8P6
    Conserved Domains (1) summary
    pfam15925
    Location:4 → 71
    SOSSC; SOSS complex subunit C

  7. NM_021218.3 → NP_067041.1  SOSS complex subunit C isoform a

    See identical proteins and their annotated locations for NP_067041.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) encodes the longest isoform (a).
    Source sequence(s)
    AL390067, BC065210, BQ219222
    Consensus CDS
    CCDS6785.1
    UniProtKB/Swiss-Prot
    Q5VWJ7, Q96E04, Q9NRY2, Q9P090
    Related
    ENSP00000363360.3, ENST00000374242.9
    Conserved Domains (1) summary
    pfam15925
    Location:18 → 101
    SOSSC; SOSS complex subunit C

RNA

  1. NR_138054.2 RNA Sequence

    Status: REVIEWED

    Source sequence(s)
    AL390067

  2. NR_138055.2 RNA Sequence

    Status: REVIEWED

    Source sequence(s)
    AL390067

  3. NR_138056.2 RNA Sequence

    Status: REVIEWED

    Source sequence(s)
    AL390067

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000009.12 Reference GRCh38.p14 Primary Assembly

    Range
    112683926..112718117 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060933.1 Alternate T2T-CHM13v2.0

    Range
    124855150..124889339 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q9NRY2.1 GenPept UniProtKB/Swiss-Prot:Q9NRY2

Gene LinkOut

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