Display Settings:

Format

Send to:

Choose Destination

KDM5A lysine (K)-specific demethylase 5A [ Homo sapiens (human) ]

Gene ID: 5927, updated on 13-Jan-2015
Official Symbol
KDM5Aprovided by HGNC
Official Full Name
lysine (K)-specific demethylase 5Aprovided by HGNC
Primary source
HGNC:HGNC:9886
See related
Ensembl:ENSG00000073614; HPRD:08915; MIM:180202; Vega:OTTHUMG00000168055
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
RBP2; RBBP2; RBBP-2
Summary
This gene encodes a member of the Jumonji, AT-rich interactive domain 1 (JARID1) histone demethylase protein family. The encoded protein plays a role in gene regulation through the histone code by specifically demethylating lysine 4 of histone H3. The encoded protein interacts with many other proteins, including retinoblastoma protein, and is implicated in the transcriptional regulation of Hox genes and cytokines. This gene may play a role in tumor progression. [provided by RefSeq, Aug 2013]
Orthologs
See KDM5A in MapViewer
Location:
12p11
Exon count:
28
Annotation release Status Assembly Chr Location
106 current GRCh38 (GCF_000001405.26) 12 NC_000012.12 (280057..389455, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 12 NC_000012.11 (389223..498620, complement)

Chromosome 12 - NC_000012.12Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC101929384 Neighboring gene solute carrier family 6 (neurotransmitter transporter), member 12 Neighboring gene solute carrier family 6 (neurotransmitter transporter), member 13 Neighboring gene uncharacterized LOC102723544 Neighboring gene coiled-coil domain containing 77 Neighboring gene beta-1,4-N-acetyl-galactosaminyl transferase 3 Neighboring gene ninjurin 2

GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

NHGRI GWAS Catalog

Description
New loci associated with kidney function and chronic kidney disease.
NHGRI GWA Catalog
  • Chromatin modifying enzymes, organism-specific biosystem (from REACTOME)
    Chromatin modifying enzymes, organism-specific biosystemEukaryotic DNA is associated with histone proteins and organized into a complex nucleoprotein structure called chromatin. This structure decreases the accessibility of DNA but also helps to protect i...
  • Chromatin organization, organism-specific biosystem (from REACTOME)
    Chromatin organization, organism-specific biosystemChromatin organization refers to the composition and conformation of complexes between DNA, protein and RNA. It is determined by processes that result in the specification, formation or maintenance o...
  • HDMs demethylate histones, organism-specific biosystem (from REACTOME)
    HDMs demethylate histones, organism-specific biosystemHistone lysine demethylases (KDMs) are able to reverse N-methylations of histones and probably other proteins. To date KDMs have been demonstrated to catalyse demethylation of N-epsilon methylated ly...
Products Interactant Other Gene Complex Source Pubs Description

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
DNA binding IEA
Inferred from Electronic Annotation
more info
 
chromatin binding IEA
Inferred from Electronic Annotation
more info
 
oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors IEA
Inferred from Electronic Annotation
more info
 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
sequence-specific DNA binding transcription factor activity TAS
Traceable Author Statement
more info
PubMed 
transcription coactivator activity ISS
Inferred from Sequence or Structural Similarity
more info
 
zinc ion binding IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
chromatin modification IEA
Inferred from Electronic Annotation
more info
 
chromatin organization TAS
Traceable Author Statement
more info
 
circadian regulation of gene expression ISS
Inferred from Sequence or Structural Similarity
more info
 
multicellular organismal development IEA
Inferred from Electronic Annotation
more info
 
negative regulation of histone deacetylase activity ISS
Inferred from Sequence or Structural Similarity
more info
 
oxidation-reduction process IEA
Inferred from Electronic Annotation
more info
 
positive regulation of transcription, DNA-templated IDA
Inferred from Direct Assay
more info
PubMed 
transcription from RNA polymerase II promoter TAS
Traceable Author Statement
more info
PubMed 
Component Evidence Code Pubs
colocalizes_with cyclin-dependent protein kinase activating kinase holoenzyme complex IDA
Inferred from Direct Assay
more info
PubMed 
cytoplasm IDA
Inferred from Direct Assay
more info
 
nucleolus IEA
Inferred from Electronic Annotation
more info
 
nucleoplasm IDA
Inferred from Direct Assay
more info
 
nucleoplasm TAS
Traceable Author Statement
more info
 
nucleus IDA
Inferred from Direct Assay
more info
 
Preferred Names
lysine-specific demethylase 5A
Names
lysine-specific demethylase 5A
histone demethylase JARID1A
retinoblastoma binding protein 2
jumonji/ARID domain-containing protein 1A
Jumonji, AT rich interactive domain 1A (RBP2-like)

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_001042603.2NP_001036068.1  lysine-specific demethylase 5A

    See proteins identical to NP_001036068.1

    Status: REVIEWED

    Source sequence(s)
    AB209999, AC007406, BU182136, DA211439
    Consensus CDS
    CCDS41736.1
    UniProtKB/Swiss-Prot
    P29375
    Related
    ENSP00000382688, OTTHUMP00000237742, ENST00000399788, OTTHUMT00000397812
    Conserved Domains (6) summary
    smart00545
    Location:1859
    JmjN; Small domain found in the jumonji family of transcription factors
    pfam02373
    Location:470586
    JmjC; JmjC domain, hydroxylase
    pfam00628
    Location:295343
    PHD; PHD-finger
    pfam01388
    Location:81170
    ARID; ARID/BRIGHT DNA binding domain
    pfam02928
    Location:676729
    zf-C5HC2; C5HC2 zinc finger
    pfam08429
    Location:7401072
    PLU-1; PLU-1-like protein

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 106

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

Reference GRCh38 Primary Assembly

Genomic

  1. NC_000012.12 

    Range
    280057..389455
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate CHM1_1.1

Genomic

  1. NC_018923.2 

    Range
    388218..497622
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate HuRef

Genomic

  1. AC_000144.1 

    Range
    242343..351309
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_005056.2: Suppressed sequence

    Description
    NM_005056.2: This RefSeq was permanently suppressed because currently there is insufficient support for the transcript and the protein.