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INTS11 integrator complex subunit 11 [ Homo sapiens (human) ]

Gene ID: 54973, updated on 12-May-2019

Summary

Official Symbol
INTS11provided by HGNC
Official Full Name
integrator complex subunit 11provided by HGNC
Primary source
HGNC:HGNC:26052
See related
Ensembl:ENSG00000127054 MIM:611354
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
RC68; INT11; RC-68; CPSF3L; CPSF73L
Summary
The Integrator complex contains at least 12 subunits and associates with the C-terminal domain of RNA polymerase II large subunit (POLR2A; MIM 180660) and mediates the 3-prime end processing of small nuclear RNAs U1 (RNU1; MIM 180680) and U2 (RNU2; MIM 180690). INTS11, or CPSF3L, is the catalytic subunit of the Integrator complex (Baillat et al., 2005 [PubMed 16239144]).[supplied by OMIM, Mar 2008]
Expression
Ubiquitous expression in testis (RPKM 35.0), endometrium (RPKM 21.3) and 25 other tissues See more
Orthologs

Genomic context

See INTS11 in Genome Data Viewer
Location:
1p36.33
Exon count:
19
Annotation release Status Assembly Chr Location
109 current GRCh38.p12 (GCF_000001405.38) 1 NC_000001.11 (1311585..1324687, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (1246965..1260067, complement)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene ArfGAP with coiled-coil, ankyrin repeat and PH domains 3 Neighboring gene microRNA 6726 Neighboring gene small nucleolar RNA, C/D box 167 Neighboring gene pseudouridine synthase like 1 Neighboring gene microRNA 6727 Neighboring gene ceramide-1-phosphate transfer protein Neighboring gene taste 1 receptor member 3 Neighboring gene dishevelled segment polarity protein 1

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 FunctionsWhat's a GeneRIF?

Phenotypes

NHGRI GWAS Catalog

Description
Host-microbe interactions have shaped the genetic architecture of inflammatory bowel disease.
NHGRI GWA Catalog

Pathways from BioSystems

  • Gene Expression, organism-specific biosystem (from REACTOME)
    Gene Expression, organism-specific biosystemGene Expression covers the pathways by which genomic DNA is transcribed to yield RNA, the regulation of these transcription processes, and the pathways by which newly-made RNA Transcripts are process...
  • RNA polymerase II transcribes snRNA genes, organism-specific biosystem (from REACTOME)
    RNA polymerase II transcribes snRNA genes, organism-specific biosystemSmall nuclear RNAs (snRNAs) play key roles in splicing and some of them, specifically the U1 and U2 snRNAs, are encoded by multicopy snRNA gene clusters containing tandem arrays of genes, about 30 in...

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • FLJ13294, FLJ20542

Gene Ontology Provided by GOA

Function Evidence Code Pubs
hydrolase activity IEA
Inferred from Electronic Annotation
more info
 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
contributes_to protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
snRNA processing IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
snRNA processing IDA
Inferred from Direct Assay
more info
PubMed 
snRNA transcription by RNA polymerase II TAS
Traceable Author Statement
more info
 
Component Evidence Code Pubs
blood microparticle HDA PubMed 
cytoplasm IDA
Inferred from Direct Assay
more info
PubMed 
cytosol IDA
Inferred from Direct Assay
more info
 
integrator complex IDA
Inferred from Direct Assay
more info
PubMed 
nucleoplasm IDA
Inferred from Direct Assay
more info
 
nucleoplasm TAS
Traceable Author Statement
more info
 
nucleus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
nucleus IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
integrator complex subunit 11
Names
CPSF3-like protein
cleavage and polyadenylation specific factor 3-like
cleavage and polyadenylation-specific factor 3-like protein
protein related to CPSF subunits of 68 kDa
related to CPSF subunits 68 kDa
NP_001243385.1
NP_001243389.1
NP_001243391.1
NP_001243392.1
NP_060341.2
XP_011539949.1
XP_011539950.1
XP_011539952.1
XP_016857046.1
XP_016857047.1

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_001256456.1NP_001243385.1  integrator complex subunit 11 isoform 1

    See identical proteins and their annotated locations for NP_001243385.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and it encodes the longest protein (isoform 1).
    Source sequence(s)
    AA687684, AK056652, AK291387, AK297350, DC299237
    Consensus CDS
    CCDS57960.1
    UniProtKB/Swiss-Prot
    Q5TA45
    Related
    ENSP00000445001.1, ENST00000540437.5
    Conserved Domains (5) summary
    smart01027
    Location:251369
    Beta-Casp; Beta-Casp domain
    COG1236
    Location:16450
    YSH1; RNA processing exonuclease, beta-lactamase fold, Cft2 family [Translation, ribosomal structure and biogenesis]
    pfam07521
    Location:382422
    RMMBL; RNA-metabolizing metallo-beta-lactamase
    cd16291
    Location:16210
    INTS11-like_MBL-fold; Integrator complex subunit 11, and related proteins; MBL-fold metallo-hydrolase domain
    cl02570
    Location:414486
    RhoGAP; RhoGAP: GTPase-activator protein (GAP) for Rho-like GTPases; GAPs towards Rho/Rac/Cdc42-like small GTPases. Small GTPases (G proteins) cluster into distinct families, and all act as molecular switches, active in their GTP-bound form but inactive when ...
  2. NM_001256460.1NP_001243389.1  integrator complex subunit 11 isoform 3

    See identical proteins and their annotated locations for NP_001243389.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) has multiple differences which results in the use of a downstream start codon, compared to variant 1. The resulting protein (isoform 3) is shorter when it is compared to isoform 1.
    Source sequence(s)
    AA687684, AK291387, AK297350, DC295791, DC299237
    Consensus CDS
    CCDS57959.1
    UniProtKB/Swiss-Prot
    Q5TA45
    Related
    ENSP00000444672.1, ENST00000545578.5
    Conserved Domains (5) summary
    smart01027
    Location:216334
    Beta-Casp; Beta-Casp domain
    COG1236
    Location:1415
    YSH1; RNA processing exonuclease, beta-lactamase fold, Cft2 family [Translation, ribosomal structure and biogenesis]
    pfam07521
    Location:347387
    RMMBL; RNA-metabolizing metallo-beta-lactamase
    cd16291
    Location:1175
    INTS11-like_MBL-fold; Integrator complex subunit 11, and related proteins; MBL-fold metallo-hydrolase domain
    cl02570
    Location:379451
    RhoGAP; RhoGAP: GTPase-activator protein (GAP) for Rho-like GTPases; GAPs towards Rho/Rac/Cdc42-like small GTPases. Small GTPases (G proteins) cluster into distinct families, and all act as molecular switches, active in their GTP-bound form but inactive when ...
  3. NM_001256462.1NP_001243391.1  integrator complex subunit 11 isoform 4

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) lacks several exons which results in the use of an upstream start codon, compared to variant 1. The resulting protein (isoform 4) has a shorter and distinct N-terminus when it is compared to isoform 1.
    Source sequence(s)
    AA687684, AK058018, AK291387, DC299237
    Consensus CDS
    CCDS72678.1
    UniProtKB/Swiss-Prot
    Q5TA45
    UniProtKB/TrEMBL
    A0A087WYI0
    Related
    ENSP00000481821.1, ENST00000620829.4
    Conserved Domains (5) summary
    smart01027
    Location:147265
    Beta-Casp; Beta-Casp domain
    COG1236
    Location:48346
    YSH1; RNA processing exonuclease, beta-lactamase fold, Cft2 family [Translation, ribosomal structure and biogenesis]
    pfam07521
    Location:278318
    RMMBL; RNA-metabolizing metallo-beta-lactamase
    cl02570
    Location:310382
    RhoGAP; RhoGAP: GTPase-activator protein (GAP) for Rho-like GTPases; GAPs towards Rho/Rac/Cdc42-like small GTPases. Small GTPases (G proteins) cluster into distinct families, and all act as molecular switches, active in their GTP-bound form but inactive when ...
    cl23716
    Location:46106
    metallo-hydrolase-like_MBL-fold; mainly hydrolytic enzymes and related proteins which carry out various biological functions; MBL-fold metallohydrolase domain
  4. NM_001256463.1NP_001243392.1  integrator complex subunit 11 isoform 5

    See identical proteins and their annotated locations for NP_001243392.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (5) has multiple differences which results in the use of an upstream start codon, compared to variant 1. The resulting protein (isoform 5) is shorter when it is compared to isoform 1.
    Source sequence(s)
    AA687684, AK021939, AK058018, DC299237
    Consensus CDS
    CCDS57961.1
    UniProtKB/Swiss-Prot
    Q5TA45
    UniProtKB/TrEMBL
    A0A024R073
    Related
    ENSP00000404886.1, ENST00000419704.5
    Conserved Domains (5) summary
    smart01027
    Location:144262
    Beta-Casp; Beta-Casp domain
    COG1236
    Location:4343
    YSH1; RNA processing exonuclease, beta-lactamase fold, Cft2 family [Translation, ribosomal structure and biogenesis]
    pfam07521
    Location:275315
    RMMBL; RNA-metabolizing metallo-beta-lactamase
    cl02570
    Location:307379
    RhoGAP; RhoGAP: GTPase-activator protein (GAP) for Rho-like GTPases; GAPs towards Rho/Rac/Cdc42-like small GTPases. Small GTPases (G proteins) cluster into distinct families, and all act as molecular switches, active in their GTP-bound form but inactive when ...
    cl23716
    Location:6103
    metallo-hydrolase-like_MBL-fold; mainly hydrolytic enzymes and related proteins which carry out various biological functions; MBL-fold metallohydrolase domain
  5. NM_017871.5NP_060341.2  integrator complex subunit 11 isoform 2

    See identical proteins and their annotated locations for NP_060341.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks two alternate exons in the coding region which results in the use of an upstream start codon, compared to variant 1. The resulting protein (isoform 2) has a shorter and distinct N-terminus when it is compared to isoform 1.
    Source sequence(s)
    AA687684, AK023356, AL136813, DC299237, DC299993
    Consensus CDS
    CCDS21.1
    UniProtKB/Swiss-Prot
    Q5TA45
    UniProtKB/TrEMBL
    A0A024R0F2
    Related
    ENSP00000413493.1, ENST00000435064.5
    Conserved Domains (5) summary
    smart01027
    Location:245363
    Beta-Casp; Beta-Casp domain
    COG1236
    Location:4444
    YSH1; RNA processing exonuclease, beta-lactamase fold, Cft2 family [Translation, ribosomal structure and biogenesis]
    pfam07521
    Location:376416
    RMMBL; RNA-metabolizing metallo-beta-lactamase
    cd16291
    Location:6204
    INTS11-like_MBL-fold; Integrator complex subunit 11, and related proteins; MBL-fold metallo-hydrolase domain
    cl02570
    Location:408480
    RhoGAP; RhoGAP: GTPase-activator protein (GAP) for Rho-like GTPases; GAPs towards Rho/Rac/Cdc42-like small GTPases. Small GTPases (G proteins) cluster into distinct families, and all act as molecular switches, active in their GTP-bound form but inactive when ...

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109

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

Reference GRCh38.p12 Primary Assembly

Genomic

  1. NC_000001.11 Reference GRCh38.p12 Primary Assembly

    Range
    1311585..1324687 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011541650.2XP_011539952.1  integrator complex subunit 11 isoform X3

    See identical proteins and their annotated locations for XP_011539952.1

    Conserved Domains (5) summary
    smart01027
    Location:121239
    Beta-Casp; Beta-Casp domain
    COG1236
    Location:2320
    YSH1; RNA processing exonuclease, beta-lactamase fold, Cft2 family [Translation, ribosomal structure and biogenesis]
    pfam07521
    Location:252292
    RMMBL; RNA-metabolizing metallo-beta-lactamase
    cl02570
    Location:284356
    RhoGAP; RhoGAP: GTPase-activator protein (GAP) for Rho-like GTPases; GAPs towards Rho/Rac/Cdc42-like small GTPases. Small GTPases (G proteins) cluster into distinct families, and all act as molecular switches, active in their GTP-bound form but inactive when ...
    cl23716
    Location:180
    metallo-hydrolase-like_MBL-fold; mainly hydrolytic enzymes and related proteins which carry out various biological functions; MBL-fold metallohydrolase domain
  2. XM_011541647.1XP_011539949.1  integrator complex subunit 11 isoform X1

    Conserved Domains (5) summary
    smart01027
    Location:305423
    Beta-Casp; Beta-Casp domain
    COG1236
    Location:70504
    YSH1; RNA processing exonuclease, beta-lactamase fold, Cft2 family [Translation, ribosomal structure and biogenesis]
    pfam07521
    Location:436476
    RMMBL; RNA-metabolizing metallo-beta-lactamase
    cd16291
    Location:70264
    INTS11-like_MBL-fold; Integrator complex subunit 11, and related proteins; MBL-fold metallo-hydrolase domain
    cl02570
    Location:468540
    RhoGAP; RhoGAP: GTPase-activator protein (GAP) for Rho-like GTPases; GAPs towards Rho/Rac/Cdc42-like small GTPases. Small GTPases (G proteins) cluster into distinct families, and all act as molecular switches, active in their GTP-bound form but inactive when ...
  3. XM_011541648.1XP_011539950.1  integrator complex subunit 11 isoform X2

    Conserved Domains (5) summary
    smart01027
    Location:267385
    Beta-Casp; Beta-Casp domain
    COG1236
    Location:32466
    YSH1; RNA processing exonuclease, beta-lactamase fold, Cft2 family [Translation, ribosomal structure and biogenesis]
    pfam07521
    Location:398438
    RMMBL; RNA-metabolizing metallo-beta-lactamase
    cd16291
    Location:32226
    INTS11-like_MBL-fold; Integrator complex subunit 11, and related proteins; MBL-fold metallo-hydrolase domain
    cl02570
    Location:430502
    RhoGAP; RhoGAP: GTPase-activator protein (GAP) for Rho-like GTPases; GAPs towards Rho/Rac/Cdc42-like small GTPases. Small GTPases (G proteins) cluster into distinct families, and all act as molecular switches, active in their GTP-bound form but inactive when ...
  4. XM_017001557.1XP_016857046.1  integrator complex subunit 11 isoform X3

    Conserved Domains (5) summary
    smart01027
    Location:121239
    Beta-Casp; Beta-Casp domain
    COG1236
    Location:2320
    YSH1; RNA processing exonuclease, beta-lactamase fold, Cft2 family [Translation, ribosomal structure and biogenesis]
    pfam07521
    Location:252292
    RMMBL; RNA-metabolizing metallo-beta-lactamase
    cl02570
    Location:284356
    RhoGAP; RhoGAP: GTPase-activator protein (GAP) for Rho-like GTPases; GAPs towards Rho/Rac/Cdc42-like small GTPases. Small GTPases (G proteins) cluster into distinct families, and all act as molecular switches, active in their GTP-bound form but inactive when ...
    cl23716
    Location:180
    metallo-hydrolase-like_MBL-fold; mainly hydrolytic enzymes and related proteins which carry out various biological functions; MBL-fold metallohydrolase domain
  5. XM_017001558.1XP_016857047.1  integrator complex subunit 11 isoform X3

    Conserved Domains (5) summary
    smart01027
    Location:121239
    Beta-Casp; Beta-Casp domain
    COG1236
    Location:2320
    YSH1; RNA processing exonuclease, beta-lactamase fold, Cft2 family [Translation, ribosomal structure and biogenesis]
    pfam07521
    Location:252292
    RMMBL; RNA-metabolizing metallo-beta-lactamase
    cl02570
    Location:284356
    RhoGAP; RhoGAP: GTPase-activator protein (GAP) for Rho-like GTPases; GAPs towards Rho/Rac/Cdc42-like small GTPases. Small GTPases (G proteins) cluster into distinct families, and all act as molecular switches, active in their GTP-bound form but inactive when ...
    cl23716
    Location:180
    metallo-hydrolase-like_MBL-fold; mainly hydrolytic enzymes and related proteins which carry out various biological functions; MBL-fold metallohydrolase domain

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_032179.1: Suppressed sequence

    Description
    NM_032179.1: This RefSeq was permanently suppressed because currently there is insufficient support for the transcript and the protein.
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