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JADE1 jade family PHD finger 1 [ Homo sapiens (human) ]

Gene ID: 79960, updated on 9-Jun-2020

Summary

Official Symbol
JADE1provided by HGNC
Official Full Name
jade family PHD finger 1provided by HGNC
Primary source
HGNC:HGNC:30027
See related
Ensembl:ENSG00000077684 MIM:610514
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
PHF17
Expression
Ubiquitous expression in thyroid (RPKM 13.1), ovary (RPKM 12.4) and 25 other tissues See more
Orthologs

Genomic context

See JADE1 in Genome Data Viewer
Location:
4q28.2
Exon count:
16
Annotation release Status Assembly Chr Location
109.20200522 current GRCh38.p13 (GCF_000001405.39) 4 NC_000004.12 (128809687..128875224)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 4 NC_000004.11 (129730779..129796379)

Chromosome 4 - NC_000004.12Genomic Context describing neighboring genes Neighboring gene long intergenic non-protein coding RNA 2615 Neighboring gene NFE2L2 motif-containing MPRA enhancer 199 Neighboring gene uncharacterized LOC101927259 Neighboring gene sodium channel and clathrin linker 1 Neighboring gene chromosome 4 open reading frame 33 Neighboring gene CDRT15 pseudogene 11

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?

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • FLJ22479, KIAA1807

Gene Ontology Provided by GOA

Function Evidence Code Pubs
metal ion binding IEA
Inferred from Electronic Annotation
more info
 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
transcription coactivator activity IDA
Inferred from Direct Assay
more info
PubMed 
Process Evidence Code Pubs
apoptotic process NAS
Non-traceable Author Statement
more info
PubMed 
histone H3 acetylation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
histone H3 acetylation IDA
Inferred from Direct Assay
more info
PubMed 
histone H4-K12 acetylation IDA
Inferred from Direct Assay
more info
PubMed 
NOT histone H4-K16 acetylation IDA
Inferred from Direct Assay
more info
PubMed 
histone H4-K5 acetylation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
histone H4-K5 acetylation IDA
Inferred from Direct Assay
more info
PubMed 
histone H4-K8 acetylation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
histone H4-K8 acetylation IDA
Inferred from Direct Assay
more info
PubMed 
negative regulation of G1/S transition of mitotic cell cycle IDA
Inferred from Direct Assay
more info
PubMed 
negative regulation of canonical Wnt signaling pathway IDA
Inferred from Direct Assay
more info
PubMed 
negative regulation of cell growth NAS
Non-traceable Author Statement
more info
PubMed 
positive regulation of nucleic acid-templated transcription IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
chromosome IEA
Inferred from Electronic Annotation
more info
 
ciliary basal body IDA
Inferred from Direct Assay
more info
PubMed 
cytoplasm IDA
Inferred from Direct Assay
more info
PubMed 
histone acetyltransferase complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
histone acetyltransferase complex IDA
Inferred from Direct Assay
more info
PubMed 
nuclear speck IDA
Inferred from Direct Assay
more info
PubMed 
nucleoplasm TAS
Traceable Author Statement
more info
 
nucleus IDA
Inferred from Direct Assay
more info
PubMed 
plasma membrane IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
protein Jade-1
Names
PHD finger protein 17
PHD protein Jade-1
gene for apoptosis and differentiation in epithelia
jade family PHD finger protein 1

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_001287437.2NP_001274366.1  protein Jade-1 isoform 3

    See identical proteins and their annotated locations for NP_001274366.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) uses an alternate in-frame splice site in the central coding region, compared to variant 1. The encoded isoform (3) is shorter, compared to isoform 1.
    Source sequence(s)
    AC093783, AK027620, AK127326, BI463062
    Consensus CDS
    CCDS75191.1
    UniProtKB/Swiss-Prot
    Q6IE81
    Related
    ENSP00000388015.2, ENST00000452328.6
    Conserved Domains (2) summary
    cd15671
    Location:246356
    ePHD_JADE; Extended PHD finger found in protein Jade-1, Jade-2, Jade-3 and similar proteins
    cl26518
    Location:88517
    EPL1; Enhancer of polycomb-like
  2. NM_001287439.2NP_001274368.1  protein Jade-1 isoform 1

    See identical proteins and their annotated locations for NP_001274368.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) differs in the 5' UTR, compared to variant 1. Variants 1, 4, 5, 7, and 8 encode the same isoform (1).
    Source sequence(s)
    AC093783, AK304235, BN000287, DC308588
    Consensus CDS
    CCDS34062.1
    UniProtKB/Swiss-Prot
    Q6IE81
    UniProtKB/TrEMBL
    B4E2E2
    Related
    ENSP00000425730.1, ENST00000512960.5
    Conserved Domains (2) summary
    cd15671
    Location:258368
    ePHD_JADE; Extended PHD finger found in protein Jade-1, Jade-2, Jade-3 and similar proteins
    cl26518
    Location:99529
    EPL1; Enhancer of polycomb-like
  3. NM_001287440.2NP_001274369.1  protein Jade-1 isoform 1

    See identical proteins and their annotated locations for NP_001274369.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (5) differs in the 5' UTR, compared to variant 1. Variants 1, 4, 5, 7, and 8 encode the same isoform (1).
    Source sequence(s)
    AC093783, BN000287, DA478923
    Consensus CDS
    CCDS34062.1
    UniProtKB/Swiss-Prot
    Q6IE81
    Conserved Domains (2) summary
    cd15671
    Location:258368
    ePHD_JADE; Extended PHD finger found in protein Jade-1, Jade-2, Jade-3 and similar proteins
    cl26518
    Location:99529
    EPL1; Enhancer of polycomb-like
  4. NM_001287441.2NP_001274370.1  protein Jade-1 isoform 2

    See identical proteins and their annotated locations for NP_001274370.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (6) differs in the 5' UTR, lacks two exons, and its 3'-terminal exon extends past a splice site that is used in variant 1. The encoded isoform (2) has a shorter and distinct C-terminus, compared to isoform 1. Variants 2 and 6 encode the same isoform.
    Source sequence(s)
    AF520952, AK074986, BC032376, BX107708, DA714593
    Consensus CDS
    CCDS47134.1
    UniProtKB/Swiss-Prot
    Q6IE81
    Related
    ENSP00000404211.2, ENST00000413543.6
    Conserved Domains (2) summary
    cd15704
    Location:255372
    ePHD_JADE1; Extended PHD finger found in protein Jade-1 and similar proteins
    cl26518
    Location:99503
    EPL1; Enhancer of polycomb-like
  5. NM_001287442.1NP_001274371.1  protein Jade-1 isoform 1

    See identical proteins and their annotated locations for NP_001274371.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (7) differs in the 5' UTR, compared to variant 1. Variants 1, 4, 5, 7, and 8 encode the same isoform (1).
    Source sequence(s)
    AC093783, BN000287, DA714593, DB293142
    Consensus CDS
    CCDS34062.1
    UniProtKB/Swiss-Prot
    Q6IE81
    Related
    ENSP00000483219.1, ENST00000610919.4
    Conserved Domains (2) summary
    cd15671
    Location:258368
    ePHD_JADE; Extended PHD finger found in protein Jade-1, Jade-2, Jade-3 and similar proteins
    cl26518
    Location:99529
    EPL1; Enhancer of polycomb-like
  6. NM_001287443.1NP_001274372.1  protein Jade-1 isoform 1

    See identical proteins and their annotated locations for NP_001274372.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (8) differs in the 5' UTR, compared to variant 1. Variants 1, 4, 5, 7, and 8 encode the same isoform (1).
    Source sequence(s)
    AC093783, AC108024, BN000287, DB085413
    Consensus CDS
    CCDS34062.1
    UniProtKB/Swiss-Prot
    Q6IE81
    Related
    ENSP00000482212.1, ENST00000611140.4
    Conserved Domains (2) summary
    cd15671
    Location:258368
    ePHD_JADE; Extended PHD finger found in protein Jade-1, Jade-2, Jade-3 and similar proteins
    cl26518
    Location:99529
    EPL1; Enhancer of polycomb-like
  7. NM_024900.5NP_079176.2  protein Jade-1 isoform 2

    See identical proteins and their annotated locations for NP_079176.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks two exons and its 3'-terminal exon extends past a splice site that is used in variant 1. The encoded isoform (2) has a shorter and distinct C-terminus, compared to isoform 1. Variants 2 and 6 encode the same isoform.
    Source sequence(s)
    AF520952, AK027620, AK074986, BI463062, BX107708
    Consensus CDS
    CCDS47134.1
    UniProtKB/Swiss-Prot
    Q6IE81
    Related
    ENSP00000423737.1, ENST00000511647.5
    Conserved Domains (2) summary
    cd15704
    Location:255372
    ePHD_JADE1; Extended PHD finger found in protein Jade-1 and similar proteins
    cl26518
    Location:99503
    EPL1; Enhancer of polycomb-like
  8. NM_199320.4NP_955352.1  protein Jade-1 isoform 1

    See identical proteins and their annotated locations for NP_955352.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes the longest isoform (1). Variants 1, 4, 5, 7, and 8 encode the same isoform.
    Source sequence(s)
    AC093783, AK027620, BI463062, BN000287
    Consensus CDS
    CCDS34062.1
    UniProtKB/Swiss-Prot
    Q6IE81
    Related
    ENSP00000226319.6, ENST00000226319.11
    Conserved Domains (2) summary
    cd15671
    Location:258368
    ePHD_JADE; Extended PHD finger found in protein Jade-1, Jade-2, Jade-3 and similar proteins
    cl26518
    Location:99529
    EPL1; Enhancer of polycomb-like

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_000004.12 Reference GRCh38.p13 Primary Assembly

    Range
    128809687..128875224
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017008626.2XP_016864115.1  protein Jade-1 isoform X4

    Conserved Domains (2) summary
    cd15704
    Location:255372
    ePHD_JADE1; Extended PHD finger found in protein Jade-1 and similar proteins
    cl26518
    Location:99502
    EPL1; Enhancer of polycomb-like
  2. XM_024454219.1XP_024309987.1  protein Jade-1 isoform X3

    Conserved Domains (2) summary
    cd15671
    Location:271381
    ePHD_JADE; Extended PHD finger found in protein Jade-1, Jade-2, Jade-3 and similar proteins
    cl26518
    Location:112542
    EPL1; Enhancer of polycomb-like
  3. XM_005263232.2XP_005263289.1  protein Jade-1 isoform X1

    See identical proteins and their annotated locations for XP_005263289.1

    UniProtKB/Swiss-Prot
    Q6IE81
    Conserved Domains (2) summary
    cd15671
    Location:258368
    ePHD_JADE; Extended PHD finger found in protein Jade-1, Jade-2, Jade-3 and similar proteins
    cl26518
    Location:99529
    EPL1; Enhancer of polycomb-like
  4. XM_017008627.1XP_016864116.1  protein Jade-1 isoform X4

    Conserved Domains (2) summary
    cd15704
    Location:255372
    ePHD_JADE1; Extended PHD finger found in protein Jade-1 and similar proteins
    cl26518
    Location:99502
    EPL1; Enhancer of polycomb-like
  5. XM_024454217.1XP_024309985.1  protein Jade-1 isoform X1

    Conserved Domains (2) summary
    cd15671
    Location:258368
    ePHD_JADE; Extended PHD finger found in protein Jade-1, Jade-2, Jade-3 and similar proteins
    cl26518
    Location:99529
    EPL1; Enhancer of polycomb-like
  6. XM_024454221.1XP_024309989.1  protein Jade-1 isoform X4

    Conserved Domains (2) summary
    cd15704
    Location:255372
    ePHD_JADE1; Extended PHD finger found in protein Jade-1 and similar proteins
    cl26518
    Location:99502
    EPL1; Enhancer of polycomb-like
  7. XM_024454218.1XP_024309986.1  protein Jade-1 isoform X2

    Conserved Domains (2) summary
    cd15704
    Location:270387
    ePHD_JADE1; Extended PHD finger found in protein Jade-1 and similar proteins
    cl26518
    Location:114544
    EPL1; Enhancer of polycomb-like
  8. XM_024454220.1XP_024309988.1  protein Jade-1 isoform X1

    Conserved Domains (2) summary
    cd15671
    Location:258368
    ePHD_JADE; Extended PHD finger found in protein Jade-1, Jade-2, Jade-3 and similar proteins
    cl26518
    Location:99529
    EPL1; Enhancer of polycomb-like
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