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PAF1 PAF1 homolog, Paf1/RNA polymerase II complex component [ Homo sapiens (human) ]

Gene ID: 54623, updated on 12-Aug-2018

Summary

Official Symbol
PAF1provided by HGNC
Official Full Name
PAF1 homolog, Paf1/RNA polymerase II complex componentprovided by HGNC
Primary source
HGNC:HGNC:25459
See related
Ensembl:ENSG00000006712 MIM:610506; Vega:OTTHUMG00000182968
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
PD2; F23149_1
Summary
This gene encodes a subunit of the polymerase associated factor (PAF1) complex. The PAF1 complex interacts with RNA polymerase II and plays a role in transcription elongation as well as histone modifications including ubiquitylation and methylation. Alternatively spliced transcript variants encoding multiple isoforms have been observed for this gene. [provided by RefSeq, Feb 2012]
Expression
Ubiquitous expression in testis (RPKM 32.1), ovary (RPKM 17.7) and 25 other tissues See more
Orthologs

Genomic context

See PAF1 in Genome Data Viewer
Location:
19q13.2
Exon count:
15
Annotation release Status Assembly Chr Location
109 current GRCh38.p12 (GCF_000001405.38) 19 NC_000019.10 (39385629..39391195, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 19 NC_000019.9 (39876269..39881835, complement)

Chromosome 19 - NC_000019.10Genomic Context describing neighboring genes Neighboring gene glia maturation factor gamma Neighboring gene sterile alpha motif domain containing 4B Neighboring gene RNA, 7SL, cytoplasmic 566, pseudogene Neighboring gene mediator complex subunit 29 Neighboring gene ZFP36 ring finger protein

Genomic regions, transcripts, and products

Bibliography

GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

HIV-1 interactions

Replication interactions

Interaction Pubs
Knockdown of Paf1, RNA polymerase II associated factor, 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

Protein interactions

Protein Gene Interaction Pubs
Tat tat HIV-1 Tat forms at least two distinct P-TEFb-containing complexes. Tatcom1 is composed of P-TEFb, AF9, ENL, ELL, AFF1, AFF4, and PAF1, presenting strong CTD-kinase activity, while Tatcom2 consists of 7SK, LARP7, and MEPCE with two molecules of Tat/P-TEFb PubMed

Go to the HIV-1, Human Interaction Database

Pathways from BioSystems

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • FLJ11123

Gene Ontology Provided by GOA

Function Evidence Code Pubs
RNA polymerase II complex binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
RNA polymerase II complex binding IDA
Inferred from Direct Assay
more info
PubMed 
chromatin binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
chromatin binding IEA
Inferred from Electronic Annotation
more info
 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
Wnt signaling pathway 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 monoubiquitination IDA
Inferred from Direct Assay
more info
PubMed 
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
 
nucleosome positioning IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of cell cycle G1/S phase transition IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of histone methylation IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of mRNA 3'-end processing 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 localization to nucleus IMP
Inferred from Mutant Phenotype
more info
PubMed 
protein ubiquitination TAS
Traceable Author Statement
more info
 
stem cell population maintenance IEA
Inferred from Electronic Annotation
more info
 
transcription by RNA polymerase II TAS
Traceable Author Statement
more info
 
transcription elongation from RNA polymerase II promoter TAS
Traceable Author Statement
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 
cell junction IDA
Inferred from Direct Assay
more info
 
cytoplasm IDA
Inferred from Direct Assay
more info
PubMed 
membrane IDA
Inferred from Direct Assay
more info
PubMed 
nucleoplasm IDA
Inferred from Direct Assay
more info
 
nucleoplasm TAS
Traceable Author Statement
more info
 
transcriptionally active chromatin IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 

General protein information

Preferred Names
RNA polymerase II-associated factor 1 homolog
Names
Paf1, RNA polymerase II associated factor, homolog
pancreatic differentiation protein 2

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_001256826.1NP_001243755.1  RNA polymerase II-associated factor 1 homolog isoform 2

    See identical proteins and their annotated locations for NP_001243755.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) lacks an in-frame exon in the 5' coding region and uses an alternate splice site in the 3' coding region, which results in a frameshift, compared to variant 1. The encoded isoform (2) is shorter and has a distinct C-terminus, compared to isoform 1.
    Source sequence(s)
    AK098423, BC000017, BC013402, DA821359
    Consensus CDS
    CCDS59387.1
    UniProtKB/Swiss-Prot
    Q8N7H5
    Related
    ENSP00000468874.1, OTTHUMP00000270571, ENST00000595564.5, OTTHUMT00000464478
    Conserved Domains (1) summary
    pfam03985
    Location:20361
    Paf1; Paf1
  2. NM_019088.3NP_061961.2  RNA polymerase II-associated factor 1 homolog isoform 1

    See identical proteins and their annotated locations for NP_061961.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longer isoform (1).
    Source sequence(s)
    BC000017, DA821359
    Consensus CDS
    CCDS12533.1
    UniProtKB/Swiss-Prot
    Q8N7H5
    UniProtKB/TrEMBL
    A0A024R0H6
    Related
    ENSP00000221265.2, OTTHUMP00000270570, ENST00000221265.7, OTTHUMT00000464477
    Conserved Domains (1) summary
    pfam03985
    Location:30443
    Paf1; Paf1

RNA

  1. NR_046384.1 RNA Sequence

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) lacks an internal exon and includes an alternate internal exon, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AK294625, BC000017, DA821359

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109 details...Open this link in a new tab

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

Reference GRCh38.p12 Primary Assembly

Genomic

  1. NC_000019.10 Reference GRCh38.p12 Primary Assembly

    Range
    39385629..39391195 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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