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JADE3 jade family PHD finger 3 [ Homo sapiens (human) ]

Gene ID: 9767, updated on 4-Jul-2021

Summary

Official Symbol
JADE3provided by HGNC
Official Full Name
jade family PHD finger 3provided by HGNC
Primary source
HGNC:HGNC:22982
See related
Ensembl:ENSG00000102221 MIM:300618
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
PHF16; JADE-3
Summary
This gene encodes a member of a family of large proteins containing PHD (plant homeo domain)-type zinc fingers. The encoded protein may be associated in a nuclear complex that functions in histone H4 acetylation. Alternative splicing results in multiple transcript variants encoding the same protein. [provided by RefSeq, Aug 2013]
Expression
Broad expression in testis (RPKM 8.9), placenta (RPKM 7.4) and 25 other tissues See more
Orthologs
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Genomic context

See JADE3 in Genome Data Viewer
Location:
Xp11.3
Exon count:
12
Annotation release Status Assembly Chr Location
109.20210514 current GRCh38.p13 (GCF_000001405.39) X NC_000023.11 (46912301..47061242)
105.20201022 previous assembly GRCh37.p13 (GCF_000001405.25) X NC_000023.10 (46771736..46920641)

Chromosome X - NC_000023.11Genomic Context describing neighboring genes Neighboring gene RP2 activator of ARL3 GTPase Neighboring gene long intergenic non-protein coding RNA 1545 Neighboring gene Sharpr-MPRA regulatory region 7060 Neighboring gene RNA, U6 small nuclear 1189, pseudogene Neighboring gene regucalcin Neighboring gene uncharacterized LOC105373193 Neighboring gene uncharacterized LOC107985720

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

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • KIAA0215, MGC138748, MGC138749

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
involved_in histone H3 acetylation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in histone H3 acetylation IDA
Inferred from Direct Assay
more info
PubMed 
involved_in histone H4-K12 acetylation IDA
Inferred from Direct Assay
more info
PubMed 
NOT involved_in histone H4-K16 acetylation IDA
Inferred from Direct Assay
more info
PubMed 
involved_in histone H4-K5 acetylation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in histone H4-K5 acetylation IDA
Inferred from Direct Assay
more info
PubMed 
involved_in histone H4-K8 acetylation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in histone H4-K8 acetylation IDA
Inferred from Direct Assay
more info
PubMed 
Component Evidence Code Pubs
part_of histone acetyltransferase complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
part_of histone acetyltransferase complex IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
protein Jade-3
Names
PHD finger protein 16
jade family PHD finger protein 3

NCBI Reference Sequences (RefSeq)

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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_013324.3 RefSeqGene

    Range
    4976..153942
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001077445.3NP_001070913.1  protein Jade-3

    See identical proteins and their annotated locations for NP_001070913.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Variants 1 and 2 encode the same protein.
    Source sequence(s)
    AF127774, AL704455, AW071647, BN000289
    Consensus CDS
    CCDS14271.1
    UniProtKB/Swiss-Prot
    Q92613
    UniProtKB/TrEMBL
    A0A024R1A2
    Related
    ENSP00000479377.1, ENST00000611250.4
    Conserved Domains (3) summary
    cd15681
    Location:202251
    PHD_JADE3; PHD finger found in protein Jade-3 and similar proteins
    cd15706
    Location:255365
    ePHD_JADE3; Extended PHD finger found in protein Jade-3 and similar proteins
    pfam10513
    Location:88177
    EPL1; Enhancer of polycomb-like
  2. NM_014735.5NP_055550.1  protein Jade-3

    See identical proteins and their annotated locations for NP_055550.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longer transcript. Variants 1 and 2 encode the same protein.
    Source sequence(s)
    AF127774, AL627143, AW071647, BN000289
    Consensus CDS
    CCDS14271.1
    UniProtKB/Swiss-Prot
    Q92613
    UniProtKB/TrEMBL
    A0A024R1A2
    Related
    ENSP00000481850.1, ENST00000614628.5
    Conserved Domains (3) summary
    cd15681
    Location:202251
    PHD_JADE3; PHD finger found in protein Jade-3 and similar proteins
    cd15706
    Location:255365
    ePHD_JADE3; Extended PHD finger found in protein Jade-3 and similar proteins
    pfam10513
    Location:88177
    EPL1; Enhancer of polycomb-like

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20210514

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000023.11 Reference GRCh38.p13 Primary Assembly

    Range
    46912301..47061242
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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