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INTS4 integrator complex subunit 4 [ Homo sapiens (human) ]

Gene ID: 92105, updated on 3-Apr-2024

Summary

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Official Symbol
INTS4provided by HGNC
Official Full Name
integrator complex subunit 4provided by HGNC
Primary source
HGNC:HGNC:25048
See related
Ensembl:ENSG00000149262 MIM:611348; AllianceGenome:HGNC:25048
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
INT4; MST093
Summary
INTS4 is a subunit of the Integrator complex, which associates with the C-terminal domain of RNA polymerase II large subunit (POLR2A; MIM 180660) and mediates 3-prime end processing of small nuclear RNAs U1 (RNU1; MIM 180680) and U2 (RNU2; MIM 180690) (Baillat et al., 2005 [PubMed 16239144]).[supplied by OMIM, Mar 2008]
Expression
Ubiquitous expression in lymph node (RPKM 4.0), appendix (RPKM 3.5) and 25 other tissues See more
Orthologs
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Genomic context

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Location:
11q14.1
Exon count:
27
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 11 NC_000011.10 (77874362..77994668, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 11 NC_060935.1 (77807588..77927912, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 11 NC_000011.9 (77589766..77705714, complement)

Chromosome 11 - NC_000011.10Genomic Context describing neighboring genes Neighboring gene remodeling and spacing factor 1 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:77530149-77531122 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:77531123-77532095 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3803 Neighboring gene ribosomal protein S20 pseudogene 27 Neighboring gene adipogenesis associated Mth938 domain containing Neighboring gene ribosomal protein L21 pseudogene 95 Neighboring gene H3K27ac hESC enhancer GRCh37_chr11:77643873-77644620 Neighboring gene H3K27ac hESC enhancer GRCh37_chr11:77644621-77645367 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5312 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3804 Neighboring gene MPRA-validated peak1367 silencer Neighboring gene NDUFC2-KCTD14 readthrough Neighboring gene H3K27ac hESC enhancer GRCh37_chr11:77727696-77728196 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:77733111-77733678 Neighboring gene uncharacterized LOC124902723 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:77733679-77734248 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:77734249-77734816 Neighboring gene Sharpr-MPRA regulatory region 11011 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:77741282-77741794 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3805 Neighboring gene Sharpr-MPRA regulatory region 10650 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:77750634-77751590 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3807 Neighboring gene potassium channel tetramerization domain containing 14 Neighboring gene NADH:ubiquinone oxidoreductase subunit C2 Neighboring gene thyroid hormone responsive

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. The integrator complex is required for integrity of Cajal bodies. Takata H, et al. J Cell Sci, 2012 Jan 1. PMID 22250197
  2. Integrator subunit 4 is a 'Symplekin-like' scaffold that associates with INTS9/11 to form the Integrator cleavage module. Albrecht TR, et al. Nucleic Acids Res, 2018 May 4. PMID 29471365, Free PMC Article
  3. Characterization of KIAA0513, a novel signaling molecule that interacts with modulators of neuroplasticity, apoptosis, and the cytoskeleton. Lauriat TL, et al. Brain Res, 2006 Nov 22. PMID 17010949
  4. Structure of the catalytic core of the Integrator complex. Pfleiderer MM, et al. Mol Cell, 2021 Mar 18. PMID 33548203, Free PMC Article
  5. The Human Integrator Complex Facilitates Transcriptional Elongation by Endonucleolytic Cleavage of Nascent Transcripts. Beckedorff F, et al. Cell Rep, 2020 Jul 21. PMID 32697989, Free PMC Article

See all (47) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. INTS4 is a specific and conserved interaction partner of INTS9/11 that does not interact with either subunit individually.
    Title: Integrator subunit 4 is a 'Symplekin-like' scaffold that associates with INTS9/11 to form the Integrator cleavage module.
  2. findings demonstrate that the integrator complex is essential for snRNA maturation and Cajal body homeostasis
    Title: The integrator complex is required for integrity of Cajal bodies.
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)

Genotypes

Pathways from PubChem

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • MGC16733

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 regulation of transcription elongation by RNA polymerase II NAS
Non-traceable Author Statement
more info
 PubMed 
involved_in snRNA processing IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in snRNA processing IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in snRNA processing NAS
Non-traceable Author Statement
more info
 PubMed 
Component Evidence Code Pubs
part_of integrator complex IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of integrator complex IDA
Inferred from Direct Assay
more info
 PubMed 
part_of integrator complex NAS
Non-traceable Author Statement
more info
 PubMed 
located_in nucleolus IDA
Inferred from Direct Assay
more info
  
located_in nucleoplasm TAS
Traceable Author Statement
more info
  
located_in nucleus IDA
Inferred from Direct Assay
more info
 PubMed 
located_in nucleus NAS
Non-traceable Author Statement
more info
 PubMed 

General protein information

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Preferred Names
integrator complex subunit 4
Names
MSTP093

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_033547.4 → NP_291025.3  integrator complex subunit 4

    See identical proteins and their annotated locations for NP_291025.3

    Status: VALIDATED

    Source sequence(s)
    BC009859, BC009995, BC015664
    Consensus CDS
    CCDS31644.1
    UniProtKB/Swiss-Prot
    Q2YD62, Q6PJG4, Q7Z4E7, Q96G32, Q96GA1, Q96HW7, Q9BRC0
    UniProtKB/TrEMBL
    A8K4A1
    Related
    ENSP00000434466.1, ENST00000534064.6
    Conserved Domains (3) summary
    COG1413
    Location:51 → 256
    HEAT; HEAT repeat [General function prediction only]
    sd00044
    Location:199 → 221
    HEAT; HEAT repeat [structural motif]
    pfam01602
    Location:379 → 460
    Adaptin_N; Adaptin N terminal region

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000011.10 Reference GRCh38.p14 Primary Assembly

    Range
    77874362..77994668 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017018560.3 → XP_016874049.1  integrator complex subunit 4 isoform X1

    UniProtKB/TrEMBL
    A0A8Q3SHL8, A0A8Q3WKC7
    Related
    ENSP00000511686.1, ENST00000695096.1

  2. XM_047427873.1 → XP_047283829.1  integrator complex subunit 4 isoform X3

    UniProtKB/TrEMBL
    A0A8C8UVZ7
    Related
    ENSP00000441084.2, ENST00000535943.2

  3. XM_047427872.1 → XP_047283828.1  integrator complex subunit 4 isoform X2

    UniProtKB/TrEMBL
    A0A8Q3SHT4
    Related
    ENSP00000511692.1, ENST00000695101.1

  4. XM_011545353.4 → XP_011543655.1  integrator complex subunit 4 isoform X4

    UniProtKB/TrEMBL
    A0A8Q3WKB5, A0A8Q3WKW5
    Related
    ENSP00000511696.1, ENST00000695105.1
    Conserved Domains (3) summary
    COG1413
    Location:51 → 256
    HEAT; HEAT repeat [General function prediction only]
    pfam12755
    Location:198 → 255
    Vac14_Fab1_bd; Vacuolar 14 Fab1-binding region
    sd00044
    Location:199 → 221
    HEAT; HEAT repeat [structural motif]

RNA

  1. XR_002957208.2 RNA Sequence

  2. XR_001748036.3 RNA Sequence

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060935.1 Alternate T2T-CHM13v2.0

    Range
    77807588..77927912 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054370508.1 → XP_054226483.1  integrator complex subunit 4 isoform X1

    UniProtKB/TrEMBL
    A0A8Q3SHL8

  2. XM_054370510.1 → XP_054226485.1  integrator complex subunit 4 isoform X3

    UniProtKB/TrEMBL
    A0A8C8UVZ7

  3. XM_054370509.1 → XP_054226484.1  integrator complex subunit 4 isoform X2

    UniProtKB/TrEMBL
    A0A8Q3SHT4

  4. XM_054370511.1 → XP_054226486.1  integrator complex subunit 4 isoform X4

    UniProtKB/TrEMBL
    A0A8Q3WKB5

RNA

  1. XR_008488495.1 RNA Sequence

  2. XR_008488494.1 RNA Sequence

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q96HW7.2 GenPept UniProtKB/Swiss-Prot:Q96HW7

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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