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    INTS6 integrator complex subunit 6 [ Homo sapiens (human) ]

    Gene ID: 26512, updated on 7-Aug-2021

    Summary

    Official Symbol
    INTS6provided by HGNC
    Official Full Name
    integrator complex subunit 6provided by HGNC
    Primary source
    HGNC:HGNC:14879
    See related
    Ensembl:ENSG00000102786 MIM:604331
    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
    HDB; INT6; DBI-1; DDX26; DICE1; DDX26A; Notchl2
    Summary
    DEAD box proteins, characterized by the conserved motif Asp-Glu-Ala-Asp (DEAD), are putative RNA helicases. The protein encoded by this gene is a DEAD box protein that is part of a complex that interacts with the C-terminus of RNA polymerase II and is involved in 3' end processing of snRNAs. In addition, this gene is a candidate tumor suppressor and is located in the critical region of loss of heterozygosity (LOH). Multiple transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Apr 2015]
    Expression
    Broad expression in testis (RPKM 13.0), thyroid (RPKM 3.7) and 25 other tissues See more
    Orthologs
    NEW
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    Genomic context

    See INTS6 in Genome Data Viewer
    Location:
    13q14.3
    Exon count:
    22
    Annotation release Status Assembly Chr Location
    109.20210514 current GRCh38.p13 (GCF_000001405.39) 13 NC_000013.11 (51353171..51453333, complement)
    105.20201022 previous assembly GRCh37.p13 (GCF_000001405.25) 13 NC_000013.10 (51935713..52027172, complement)

    Chromosome 13 - NC_000013.11Genomic Context describing neighboring genes Neighboring gene family with sequence similarity 124 member A Neighboring gene serpin family E member 3 Neighboring gene microRNA 5693 Neighboring gene INTS6 antisense RNA 1 Neighboring gene ribosomal protein S4X pseudogene 16

    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

    Replication interactions

    Interaction Pubs
    Knockdown of integrator complex subunit 6 (INTS6) by siRNA inhibits the early stages of HIV-1 replication in 293T cells infected with VSV-G pseudotyped HIV-1 PubMed

    Go to the HIV-1, Human Interaction Database

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Homology

    Clone Names

    • DKFZp434B105

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables transmembrane signaling receptor activity TAS
    Traceable Author Statement
    more info
    PubMed 
    Process Evidence Code Pubs
    involved_in snRNA 3'-end processing IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    involved_in snRNA processing IDA
    Inferred from Direct Assay
    more info
    PubMed 
    Component Evidence Code Pubs
    located_in actin cytoskeleton IDA
    Inferred from Direct Assay
    more info
     
    part_of integrator complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    part_of integrator complex IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in nucleoplasm 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 

    General protein information

    Preferred Names
    integrator complex subunit 6
    Names
    DEAD box protein
    DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 26
    RNA helicase HDB
    protein deleted in cancer 1

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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_001039937.2NP_001035026.1  integrator complex subunit 6 isoform b

      See identical proteins and their annotated locations for NP_001035026.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) is missing a segment in the the 5' coding region, and uses an in-frame downstream start codon compared to variant 1. This results in an isoform (b) with a shorter N-terminus compared to isoform a.
      Source sequence(s)
      AF097645, AL137780, AL833524
      Consensus CDS
      CCDS41890.1
      UniProtKB/Swiss-Prot
      Q9UL03
      Related
      ENSP00000381187.2, ENST00000398119.6
      Conserved Domains (2) summary
      cd00198
      Location:8118
      vWFA; Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of ...
      pfam15300
      Location:796855
      INT_SG_DDX_CT_C; INTS6/SAGE1/DDX26B/CT45 C-terminus
    2. NM_001039938.2NP_001035027.1  integrator complex subunit 6 isoform c

      See identical proteins and their annotated locations for NP_001035027.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (3) is missing many 3' exons and contains an alternative segment at the 3' end compared to variant 1. This results in a shorter isoform (c) with a distinct C-terminus compared to isoform a.
      Source sequence(s)
      AL354820, AL833524, BC032386
      Consensus CDS
      CCDS45048.1
      UniProtKB/Swiss-Prot
      Q9UL03
      Related
      ENSP00000411245.3, ENST00000442263.4
      Conserved Domains (1) summary
      pfam13519
      Location:4103
      VWA_2; von Willebrand factor type A domain
    3. NM_001306091.2NP_001293020.1  integrator complex subunit 6 isoform 4

      See identical proteins and their annotated locations for NP_001293020.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (4) contains two alternate internal exons, and uses an in-frame downstream start codon compared to variant 1. This results in an isoform (4) with a shorter N-terminus compared to isoform a.
      Source sequence(s)
      AA251444, AA262171, AF097645, AK128795, AL833524, AW967611, BC039829, BC094745, BE160101, BG621629, BM699545, BU754174, BX116410, DA182797, FN136361
      Consensus CDS
      CCDS76636.1
      UniProtKB/Swiss-Prot
      Q9UL03
      UniProtKB/TrEMBL
      B3KQH5
      Related
      ENSP00000419871.1, ENST00000497989.5
      Conserved Domains (1) summary
      pfam15300
      Location:631690
      INT_SG_DDX_CT_C; INTS6/SAGE1/DDX26B/CT45 C-terminus
    4. NM_012141.3NP_036273.1  integrator complex subunit 6 isoform a

      See identical proteins and their annotated locations for NP_036273.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) encodes the longest isoform (a).
      Source sequence(s)
      AF097645, AL137780, AL354820, AL833524
      Consensus CDS
      CCDS9428.1
      UniProtKB/Swiss-Prot
      Q9UL03
      UniProtKB/TrEMBL
      A0A024RDU0
      Related
      ENSP00000310260.4, ENST00000311234.9
      Conserved Domains (2) summary
      pfam13519
      Location:4103
      VWA_2; von Willebrand factor type A domain
      pfam15300
      Location:809868
      INT_SG_DDX_CT_C; INTS6/SAGE1/DDX26B/CT45 C-terminus

    RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20210514

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

    Reference GRCh38.p13 Primary Assembly

    Genomic

    1. NC_000013.11 Reference GRCh38.p13 Primary Assembly

      Range
      51353171..51453333 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_011535040.3XP_011533342.1  integrator complex subunit 6 isoform X1

      See identical proteins and their annotated locations for XP_011533342.1

      UniProtKB/Swiss-Prot
      Q9UL03
      UniProtKB/TrEMBL
      A0A024RDU0
      Conserved Domains (2) summary
      pfam13519
      Location:4103
      VWA_2; von Willebrand factor type A domain
      pfam15300
      Location:809868
      INT_SG_DDX_CT_C; INTS6/SAGE1/DDX26B/CT45 C-terminus
    2. XM_011535041.2XP_011533343.1  integrator complex subunit 6 isoform X2

      Related
      ENSP00000419984.1, ENST00000490542.5
      Conserved Domains (1) summary
      pfam15300
      Location:595654
      INT_SG_DDX_CT_C; INTS6/SAGE1/DDX26B/CT45 C-terminus
    3. XM_017020540.2XP_016876029.1  integrator complex subunit 6 isoform X3

      Conserved Domains (1) summary
      pfam15300
      Location:377436
      INT_SG_DDX_CT_C; INTS6/SAGE1/DDX26B/CT45 C-terminus
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