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Aliases for INTS9 Gene

Aliases for INTS9 Gene

  • Integrator Complex Subunit 9 2 3 5
  • Protein Related To CPSF Subunits Of 74 KDa 3 4
  • INT9 3 4
  • RC74 3 4
  • CPSF2L 3
  • RC-74 4

External Ids for INTS9 Gene

Previous GeneCards Identifiers for INTS9 Gene

  • GC08M028683
  • GC08M028625
  • GC08M027170

Summaries for INTS9 Gene

Entrez Gene Summary for INTS9 Gene

  • This gene encodes a subunit of the Integrator complex. This protein complex binds the C-terminal domain of RNA polymerase II and likely plays a role in small nuclear RNA processing. The encoded protein has similarities to the subunits of the cleavage and polyadenylation specificity factor complex. Alternatively spliced transcript variants have been described.[provided by RefSeq, Feb 2010]

GeneCards Summary for INTS9 Gene

INTS9 (Integrator Complex Subunit 9) is a Protein Coding gene. Among its related pathways are Translational Control and RNA polymerase II transcribes snRNA genes.

UniProtKB/Swiss-Prot for INTS9 Gene

  • Component of the Integrator (INT) complex, a complex involved in the small nuclear RNAs (snRNA) U1 and U2 transcription and in their 3-box-dependent processing. The Integrator complex is associated with the C-terminal domain (CTD) of RNA polymerase II largest subunit (POLR2A) and is recruited to the U1 and U2 snRNAs genes (Probable). Mediates recruitment of cytoplasmic dynein to the nuclear envelope, probably as component of the INT complex (PubMed:23904267).

Gene Wiki entry for INTS9 Gene

Additional gene information for INTS9 Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for INTS9 Gene

Genomics for INTS9 Gene

Regulatory Elements for INTS9 Gene

Enhancers for INTS9 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH08H028398 1.8 FANTOM5 ENCODE dbSUPER 20.3 +489.4 489379 5 HDGF PKNOX1 FOXA2 MLX ARID4B SIN3A FEZF1 DMAP1 ZNF2 SLC30A9 ENSG00000259366 INTS9 FZD3 ZNF395 LOC100130612 ENSG00000253567 HMBOX1 PIR39512
GH08H029818 0.9 ENCODE 28.3 -928.8 -928833 2.1 ZNF473 ZSCAN4 ZNF133 YBX1 ZNF2 ZNF23 KLF7 ZNF548 EGR2 ZNF114 GTF2E2 ENSG00000259366 INTS9 HSPA8P11 RPS15AP24 LOC105379354 LINC02209 TAGLN2P2 RBPMS-AS1 GC08P029814
GH08H028699 1 ENCODE 21.5 +188.3 188325 4.6 PKNOX1 SIN3A ZNF2 YY1 SLC30A9 ZNF766 ELK1 ZNF143 ATF7 RUNX3 EXTL3-AS1 INTS9 EXTL3 INTS9-AS1 KIF13B ENSG00000254129 PIR55838
GH08H029085 1.3 Ensembl ENCODE dbSUPER 14.2 -195.8 -195763 2 PKNOX1 FEZF1 GTF3C2 ZNF366 TSHZ1 ZNF398 ZEB2 ZNF843 ZNF217 MEF2D KIF13B ZNF395 INTS9 ENSG00000259366 ENSG00000254129 ENSG00000259607
GH08H029035 1.5 FANTOM5 Ensembl ENCODE dbSUPER 11.3 -146.0 -145980 2.1 CTCF PKNOX1 STAT1 JUN USF2 RAD21 ZNF143 SMC3 HMBOX1 KIF13B HMBOX1 INTS9 ENSG00000254129 LOC105379346 HMBOX1-IT1
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around INTS9 on UCSC Golden Path with GeneCards custom track

Promoters for INTS9 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000222823 -311 3001 HDGF PKNOX1 FOXA2 ARNT ARID4B SIN3A FEZF1 DMAP1 ZNF2 YY1

Genomic Locations for INTS9 Gene

Genomic Locations for INTS9 Gene
chr8:28,767,658-28,890,389
(GRCh38/hg38)
Size:
122,732 bases
Orientation:
Minus strand
chr8:28,625,175-28,747,759
(GRCh37/hg19)

Genomic View for INTS9 Gene

Genes around INTS9 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
INTS9 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for INTS9 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for INTS9 Gene

Proteins for INTS9 Gene

  • Protein details for INTS9 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9NV88-INT9_HUMAN
    Recommended name:
    Integrator complex subunit 9
    Protein Accession:
    Q9NV88
    Secondary Accessions:
    • B7Z560
    • B7Z6M5
    • O00224
    • Q8TB16

    Protein attributes for INTS9 Gene

    Size:
    658 amino acids
    Molecular mass:
    73814 Da
    Quaternary structure:
    • Belongs to the multiprotein complex Integrator, at least composed of INTS1, INTS2, INTS3, INTS4, INTS5, INTS6, INTS7, INTS8, INTS9/RC74, INTS10, INTS11/CPSF3L and INTS12 (PubMed:16239144). Interacts with ESRRB, ESRRB is probably not a core component of the multiprotein complex Integrator and this association is a bridge for the interaction with the multiprotein complex Integrator; attracts the transcriptional machinery (By similarity).
    Miscellaneous:
    • Although strongly related to RNA-specific endonuclease proteins, it lacks the HXHXDH motif that binds zinc and participates in the catalytic center. Its function as endonuclease is therefore unsure.
    SequenceCaution:
    • Sequence=AAB67601.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for INTS9 Gene

    Alternative splice isoforms for INTS9 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for INTS9 Gene

Post-translational modifications for INTS9 Gene

  • Ubiquitination at isoforms=2, 358, posLast=459459, isoforms=2, 3510, and posLast=653653
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for INTS9 Gene

Domains & Families for INTS9 Gene

Gene Families for INTS9 Gene

HGNC:
Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Protein Domains for INTS9 Gene

Graphical View of Domain Structure for InterPro Entry

Q9NV88

UniProtKB/Swiss-Prot:

INT9_HUMAN :
  • Belongs to the metallo-beta-lactamase superfamily. RNA-metabolizing metallo-beta-lactamase-like family. INTS9 subfamily.
Family:
  • Belongs to the metallo-beta-lactamase superfamily. RNA-metabolizing metallo-beta-lactamase-like family. INTS9 subfamily.
genes like me logo Genes that share domains with INTS9: view

Function for INTS9 Gene

Molecular function for INTS9 Gene

UniProtKB/Swiss-Prot Function:
Component of the Integrator (INT) complex, a complex involved in the small nuclear RNAs (snRNA) U1 and U2 transcription and in their 3-box-dependent processing. The Integrator complex is associated with the C-terminal domain (CTD) of RNA polymerase II largest subunit (POLR2A) and is recruited to the U1 and U2 snRNAs genes (Probable). Mediates recruitment of cytoplasmic dynein to the nuclear envelope, probably as component of the INT complex (PubMed:23904267).

Gene Ontology (GO) - Molecular Function for INTS9 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 16239144
genes like me logo Genes that share ontologies with INTS9: view

Phenotypes for INTS9 Gene

GenomeRNAi human phenotypes for INTS9:
genes like me logo Genes that share phenotypes with INTS9: view

Animal Model Products

CRISPR Products

miRNA for INTS9 Gene

miRTarBase miRNAs that target INTS9

Inhibitory RNA Products

Clone Products

No data available for Enzyme Numbers (IUBMB) , Phenotypes From GWAS Catalog , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for INTS9 Gene

Localization for INTS9 Gene

Subcellular locations from UniProtKB/Swiss-Prot for INTS9 Gene

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for INTS9 gene
Compartment Confidence
nucleus 5
cytosol 5
plasma membrane 1
golgi apparatus 1

Subcellular locations from the

Human Protein Atlas (HPA)

Gene Ontology (GO) - Cellular Components for INTS9 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA,IDA 23904267
GO:0005654 nucleoplasm IDA,TAS --
GO:0005829 cytosol IDA --
GO:0032039 integrator complex IDA,IEA 16239144
genes like me logo Genes that share ontologies with INTS9: view

Pathways & Interactions for INTS9 Gene

genes like me logo Genes that share pathways with INTS9: view

Pathways by source for INTS9 Gene

2 Cell Signaling Technology pathways for INTS9 Gene
2 Reactome pathways for INTS9 Gene

Gene Ontology (GO) - Biological Process for INTS9 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0016180 snRNA processing IEA,IDA 16239144
GO:0042795 snRNA transcription from RNA polymerase II promoter TAS --
genes like me logo Genes that share ontologies with INTS9: view

No data available for SIGNOR curated interactions for INTS9 Gene

Drugs & Compounds for INTS9 Gene

(2) Drugs for INTS9 Gene - From: Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials

(8) Additional Compounds for INTS9 Gene - From: Novoseek

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
genes like me logo Genes that share compounds with INTS9: view

Transcripts for INTS9 Gene

Unigene Clusters for INTS9 Gene

Integrator complex subunit 9:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for INTS9 Gene

ExUns: 1 ^ 2 ^ 3 ^ 4 ^ 5 ^ 6 ^ 7 ^ 8a · 8b ^ 9 ^ 10 ^ 11 ^ 12a · 12b ^ 13a · 13b ^ 14 ^ 15a · 15b · 15c ^ 16a · 16b ^ 17a · 17b · 17c
SP1: - - - -
SP2: - - - - -
SP3: -
SP4: -
SP5: -
SP6:

Relevant External Links for INTS9 Gene

GeneLoc Exon Structure for
INTS9
ECgene alternative splicing isoforms for
INTS9

Expression for INTS9 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for INTS9 Gene

Protein differential expression in normal tissues from HIPED for INTS9 Gene

This gene is overexpressed in Heart (15.9), Placenta (10.4), Breast (8.4), and Monocytes (6.6).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for INTS9 Gene



Protein tissue co-expression partners for INTS9 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of INTS9 Gene:

INTS9

SOURCE GeneReport for Unigene cluster for INTS9 Gene:

Hs.162397

Evidence on tissue expression from TISSUES for INTS9 Gene

  • Nervous system(4.5)
genes like me logo Genes that share expression patterns with INTS9: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for INTS9 Gene

Orthologs for INTS9 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for INTS9 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia INTS9 33 34
  • 99.7 (n)
oppossum
(Monodelphis domestica)
Mammalia INTS9 34
  • 96 (a)
OneToOne
dog
(Canis familiaris)
Mammalia INTS9 33 34
  • 90.37 (n)
cow
(Bos Taurus)
Mammalia INTS9 33 34
  • 90.07 (n)
mouse
(Mus musculus)
Mammalia Ints9 33 16 34
  • 89.77 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia INTS9 34
  • 84 (a)
OneToOne
chicken
(Gallus gallus)
Aves INTS9 33 34
  • 80.29 (n)
lizard
(Anolis carolinensis)
Reptilia INTS9 34
  • 91 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia ints9 33
  • 78.42 (n)
African clawed frog
(Xenopus laevis)
Amphibia Xl.16093 33
zebrafish
(Danio rerio)
Actinopterygii ints9 33 34
  • 73.2 (n)
fruit fly
(Drosophila melanogaster)
Insecta IntS9 33 34
  • 57.44 (n)
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP005494 33
  • 56.67 (n)
worm
(Caenorhabditis elegans)
Secernentea CELE_F19F10.12 33
  • 49.51 (n)
F19F10.12 34
  • 31 (a)
OneToOne
thale cress
(Arabidopsis thaliana)
eudicotyledons AT3G07530 33
  • 42.5 (n)
sea squirt
(Ciona savignyi)
Ascidiacea CSA.7245 34
  • 50 (a)
OneToOne
Species where no ortholog for INTS9 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rat (Rattus norvegicus)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for INTS9 Gene

ENSEMBL:
Gene Tree for INTS9 (if available)
TreeFam:
Gene Tree for INTS9 (if available)

Paralogs for INTS9 Gene

No data available for Paralogs for INTS9 Gene

Variants for INTS9 Gene

Sequence variations from dbSNP and Humsavar for INTS9 Gene

SNP ID Clin Chr 08 pos Sequence Context AA Info Type
rs1000036494 -- 28,866,050(+) GCCAA(C/T)GGGTT intron-variant
rs1000065775 -- 28,872,593(+) GTCAA(A/G)GGGAG intron-variant
rs1000066271 -- 28,776,939(+) GTAGC(A/G)AATCA intron-variant
rs1000066954 -- 28,810,071(+) AATAA(-/TTTC)TTTCT intron-variant
rs1000117850 -- 28,813,699(+) TGATC(C/T)AAATG intron-variant

Structural Variations from Database of Genomic Variants (DGV) for INTS9 Gene

Variant ID Type Subtype PubMed ID
nsv1152051 CNV duplication 26484159
nsv1125009 CNV duplication 24896259
esv3891379 CNV gain 25118596
esv3616749 CNV loss 21293372
esv3572657 CNV loss 25503493
esv2736810 CNV deletion 23290073
esv2671910 CNV deletion 23128226
dgv7159n100 CNV gain 25217958

Variation tolerance for INTS9 Gene

Residual Variation Intolerance Score: 3.02% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.28; 25.52% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for INTS9 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
INTS9

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for INTS9 Gene

Disorders for INTS9 Gene

Relevant External Links for INTS9

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
INTS9

No disorders were found for INTS9 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for INTS9 Gene

Publications for INTS9 Gene

  1. Integrator, a multiprotein mediator of small nuclear RNA processing, associates with the C-terminal repeat of RNA polymerase II. (PMID: 16239144) Baillat D … Shiekhattar R (Cell 2005) 2 3 4 60
  2. Nuclear-localized Asunder regulates cytoplasmic dynein localization via its role in the integrator complex. (PMID: 23904267) Jodoin JN … Lee LA (Molecular biology of the cell 2013) 3 4 60
  3. DNA sequence and analysis of human chromosome 8. (PMID: 16421571) Nusbaum C … Lander ES (Nature 2006) 3 4 60
  4. A CPSF-73 homologue is required for cell cycle progression but not cell growth and interacts with a protein having features of CPSF-100. (PMID: 15684398) Dominski Z … Marzluff WF (Molecular and cellular biology 2005) 3 4 60
  5. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 60

Products for INTS9 Gene

Sources for INTS9 Gene

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