Format

Send to:

Choose Destination

CTR9 CTR9 homolog, Paf1/RNA polymerase II complex component [ Homo sapiens (human) ]

Gene ID: 9646, updated on 13-Mar-2020

Summary

Official Symbol
CTR9provided by HGNC
Official Full Name
CTR9 homolog, Paf1/RNA polymerase II complex componentprovided by HGNC
Primary source
HGNC:HGNC:16850
See related
Ensembl:ENSG00000198730 MIM:609366
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
TSBP; p150; SH2BP1; p150TSP
Summary
The protein encoded by this gene is a component of the PAF1 complex, which associates with RNA polymerase II and functions in transcriptional regulation and elongation. This complex also plays a role in the modification of histones. [provided by RefSeq, Oct 2016]
Expression
Ubiquitous expression in testis (RPKM 19.1), thyroid (RPKM 14.8) and 25 other tissues See more
Orthologs

Genomic context

See CTR9 in Genome Data Viewer
Location:
11p15.4
Exon count:
25
Annotation release Status Assembly Chr Location
109.20200228 current GRCh38.p13 (GCF_000001405.39) 11 NC_000011.10 (10751246..10779746)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 11 NC_000011.9 (10772749..10801295)

Chromosome 11 - NC_000011.10Genomic Context describing neighboring genes Neighboring gene IRAG1 antisense RNA 1 Neighboring gene lymphatic vessel endothelial hyaluronan receptor 1 Neighboring gene inositol 1,4,5-triphosphate receptor associated 1 Neighboring gene uncharacterized LOC101928053 Neighboring gene eukaryotic translation initiation factor 4 gamma 2 Neighboring gene uncharacterized LOC112268072 Neighboring gene small nucleolar RNA, C/D box 97

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 Ctr9, Paf1/RNA polymerase II complex component, homolog (S. cerevisiae) by siRNA enhances the early stages of HIV-1 replication in HeLa-CD4 cells infected with viral pseudotypes HIV89.6R and HIV8.2N 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

  • KIAA0155

Gene Ontology Provided by GOA

Function Evidence Code Pubs
RNA polymerase II complex binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
SH2 domain binding IEA
Inferred from Electronic Annotation
more info
 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
JAK-STAT cascade ISS
Inferred from Sequence or Structural Similarity
more info
 
Wnt signaling pathway IEA
Inferred from Electronic Annotation
more info
 
blastocyst growth IEA
Inferred from Electronic Annotation
more info
 
blastocyst hatching IEA
Inferred from Electronic Annotation
more info
 
cellular response to lipopolysaccharide ISS
Inferred from Sequence or Structural Similarity
more info
 
endodermal cell fate commitment ISS
Inferred from Sequence or Structural Similarity
more info
 
histone H2B ubiquitination IDA
Inferred from Direct Assay
more info
PubMed 
histone H3-K4 trimethylation IMP
Inferred from Mutant Phenotype
more info
PubMed 
histone monoubiquitination IDA
Inferred from Direct Assay
more info
PubMed 
inner cell mass cell differentiation IEA
Inferred from Electronic Annotation
more info
 
interleukin-6-mediated signaling pathway ISS
Inferred from Sequence or Structural Similarity
more info
 
negative regulation of mRNA polyadenylation IMP
Inferred from Mutant Phenotype
more info
PubMed 
negative regulation of myeloid cell differentiation IDA
Inferred from Direct Assay
more info
PubMed 
negative regulation of transcription by RNA polymerase II ISS
Inferred from Sequence or Structural Similarity
more info
 
positive regulation of histone H2B ubiquitination IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of histone H3-K4 methylation IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of histone H3-K79 methylation IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of transcription by RNA polymerase II IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of transcription elongation from RNA polymerase II promoter IDA
Inferred from Direct Assay
more info
PubMed 
protein ubiquitination TAS
Traceable Author Statement
more info
 
regulation of genetic imprinting IEA
Inferred from Electronic Annotation
more info
 
regulation of histone H3-K4 methylation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
regulation of transcription, DNA-templated IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
stem cell population maintenance IDA
Inferred from Direct Assay
more info
PubMed 
transcription by RNA polymerase II TAS
Traceable Author Statement
more info
 
transcription elongation from RNA polymerase II promoter TAS
Traceable Author Statement
more info
 
trophectodermal cell differentiation IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
Cdc73/Paf1 complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Cdc73/Paf1 complex IDA
Inferred from Direct Assay
more info
PubMed 
nuclear speck IEA
Inferred from Electronic Annotation
more info
 
nucleoplasm IDA
Inferred from Direct Assay
more info
 
nucleoplasm TAS
Traceable Author Statement
more info
 
transcriptionally active chromatin ISS
Inferred from Sequence or Structural Similarity
more info
 

General protein information

Preferred Names
RNA polymerase-associated protein CTR9 homolog
Names
Ctr9, Paf1/RNA polymerase II complex component, homolog
SH2 domain binding protein 1 (tetratricopeptide repeat containing)
TPR-containing, SH2-binding phosphoprotein

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.

Genomic

  1. NG_051671.1 RefSeqGene

    Range
    5260..33760
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001346279.2NP_001333208.1  RNA polymerase-associated protein CTR9 homolog isoform 2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) lacks an alternate in-frame exon compared to variant 1. The resulting isoform (2) has the same N- and C-termini but is shorter compared to isoform 1.
    Source sequence(s)
    AC116535
  2. NM_014633.5NP_055448.1  RNA polymerase-associated protein CTR9 homolog isoform 1

    See identical proteins and their annotated locations for NP_055448.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
    Source sequence(s)
    BP223102, BP250198, D63875
    Consensus CDS
    CCDS7805.1
    UniProtKB/Swiss-Prot
    Q6PD62
    Related
    ENSP00000355013.2, ENST00000361367.7
    Conserved Domains (6) summary
    TIGR02795
    Location:310420
    tol_pal_ybgF; tol-pal system protein YbgF
    PHA03249
    Location:10341173
    PHA03249; DNA packaging tegument protein UL25; Provisional
    sd00006
    Location:501525
    TPR; TPR repeat [structural motif]
    pfam13414
    Location:165228
    TPR_11; TPR repeat
    pfam13424
    Location:498563
    TPR_12; Tetratricopeptide repeat
    pfam14797
    Location:10411154
    SEEEED; Serine-rich region of AP3B1, clathrin-adaptor complex

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000011.10 Reference GRCh38.p13 Primary Assembly

    Range
    10751246..10779746
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Support Center