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    KDM5A lysine (K)-specific demethylase 5A [ Gallus gallus (chicken) ]

    Gene ID: 418148, updated on 17-Aug-2024

    Summary

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    Official Symbol
    KDM5Aprovided by CGNC
    Official Full Name
    lysine (K)-specific demethylase 5Aprovided by CGNC
    Primary source
    CGNC:9829
    See related
    Ensembl:ENSGALG00010012219
    Gene type
    protein coding
    RefSeq status
    MODEL
    Organism
    Gallus gallus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Archelosauria; Archosauria; Dinosauria; Saurischia; Theropoda; Coelurosauria; Aves; Neognathae; Galloanserae; Galliformes; Phasianidae; Phasianinae; Gallus
    Also known as
    SMCY; JARID1A; Jumonji
    Orthologs
    human mouse all
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    Genomic context

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    See KDM5A in Genome Data Viewer
    Location:
    chromosome: 1
    Exon count:
    28
    Annotation release Status Assembly Chr Location
    106 current bGalGal1.mat.broiler.GRCg7b (GCF_016699485.2) 1 NC_052532.1 (60285603..60334397, complement)
    106 current bGalGal1.pat.whiteleghornlayer.GRCg7w (GCF_016700215.2) 1 NC_052573.1 (60607929..60655775, complement)

    Chromosome 1 - NC_052532.1Genomic Context describing neighboring genes Neighboring gene solute carrier family 6 member 12 Neighboring gene uncharacterized LOC107053441 Neighboring gene solute carrier family 6 member 13 Neighboring gene uncharacterized LOC107053437 Neighboring gene coiled-coil domain containing 77 Neighboring gene beta-1,4-N-acetyl-galactosaminyltransferase 3

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Association of IGF1 and KDM5A polymorphisms with performance, fatness and carcass traits in chickens. Boschiero C, et al. J Appl Genet, 2013 Feb. PMID 23275255
    2. Manual GO annotation of predictive protein signatures: the InterPro approach to GO curation. Burge S, et al. Database (Oxford), 2012. PMID 22301074, Free PMC Article
    3. TreeGrafter: phylogenetic tree-based annotation of proteins with Gene Ontology terms and other annotations. Tang H, et al. Bioinformatics, 2019 Feb 1. PMID 30032202, Free PMC Article

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Our findings suggest that the KDM5A gene might play an important role in the abdominal fat deposition in chickens.
      Title: Association of IGF1 and KDM5A polymorphisms with performance, fatness and carcass traits in chickens.
    Submit: New GeneRIF Correction

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RefSeq

    Function Evidence Code Pubs
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables histone demethylase activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in chromatin remodeling IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    lysine-specific demethylase 5A
    Names
    AT rich interactive domain 1A (RBBP2-like)
    Jumonji, AT rich interactive domain 1A (RBBP2-like)
    XP_004937981.3
    XP_040515173.1
    XP_040515174.1
    XP_416379.4

    NCBI Reference Sequences (RefSeq)

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    RefSeqs of Annotated Genomes: Gallus gallus Annotation Release 106 details...Open this link in a new tab

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

    Reference bGalGal1.mat.broiler.GRCg7b Primary Assembly

    Genomic

    1. NC_052532.1 Reference bGalGal1.mat.broiler.GRCg7b Primary Assembly

      Range
      60285603..60334397 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_416379.8 → XP_416379.4  lysine-specific demethylase 5A isoform X2

      UniProtKB/TrEMBL
      V9GWB8
      Conserved Domains (8) summary
      smart00545
      Location:18 → 59
      JmjN; Small domain found in the jumonji family of transcription factors
      cd15602
      Location:294 → 342
      PHD1_KDM5A; PHD finger 1 found in Lysine-specific demethylase 5A (KDM5A)
      cd15606
      Location:1162 → 1214
      PHD2_KDM5A; PHD finger 2 found in Lysine-specific demethylase 5A (KDM5A)
      cd15686
      Location:1607 → 1658
      PHD3_KDM5A; PHD finger 3 found in Lysine-specific demethylase 5A (KDM5A)
      cd16873
      Location:84 → 175
      ARID_KDM5A; ARID/BRIGHT DNA binding domain of lysine-specific demethylase 5A (KDM5A)
      pfam02373
      Location:469 → 585
      JmjC; JmjC domain, hydroxylase
      pfam02928
      Location:675 → 727
      zf-C5HC2; C5HC2 zinc finger
      pfam08429
      Location:740 → 1069
      PLU-1; PLU-1-like protein

    2. XM_004937924.5 → XP_004937981.3  lysine-specific demethylase 5A isoform X1

      UniProtKB/TrEMBL
      F1NN75, V9GWB8
      Related
      ENSGALP00010017016.1, ENSGALT00010029304.1
      Conserved Domains (8) summary
      smart00545
      Location:18 → 59
      JmjN; Small domain found in the jumonji family of transcription factors
      cd15602
      Location:294 → 342
      PHD1_KDM5A; PHD finger 1 found in Lysine-specific demethylase 5A (KDM5A)
      cd15606
      Location:1163 → 1215
      PHD2_KDM5A; PHD finger 2 found in Lysine-specific demethylase 5A (KDM5A)
      cd15686
      Location:1608 → 1659
      PHD3_KDM5A; PHD finger 3 found in Lysine-specific demethylase 5A (KDM5A)
      cd16873
      Location:84 → 175
      ARID_KDM5A; ARID/BRIGHT DNA binding domain of lysine-specific demethylase 5A (KDM5A)
      pfam02373
      Location:469 → 585
      JmjC; JmjC domain, hydroxylase
      pfam02928
      Location:675 → 727
      zf-C5HC2; C5HC2 zinc finger
      pfam08429
      Location:740 → 1070
      PLU-1; PLU-1-like protein

    Alternate bGalGal1.pat.whiteleghornlayer.GRCg7w

    Genomic

    1. NC_052573.1 Alternate bGalGal1.pat.whiteleghornlayer.GRCg7w

      Range
      60607929..60655775 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_040659240.2 → XP_040515174.1  lysine-specific demethylase 5A isoform X2

      UniProtKB/TrEMBL
      V9GWB8
      Conserved Domains (8) summary
      smart00545
      Location:18 → 59
      JmjN; Small domain found in the jumonji family of transcription factors
      cd15602
      Location:294 → 342
      PHD1_KDM5A; PHD finger 1 found in Lysine-specific demethylase 5A (KDM5A)
      cd15606
      Location:1162 → 1214
      PHD2_KDM5A; PHD finger 2 found in Lysine-specific demethylase 5A (KDM5A)
      cd15686
      Location:1607 → 1658
      PHD3_KDM5A; PHD finger 3 found in Lysine-specific demethylase 5A (KDM5A)
      cd16873
      Location:84 → 175
      ARID_KDM5A; ARID/BRIGHT DNA binding domain of lysine-specific demethylase 5A (KDM5A)
      pfam02373
      Location:469 → 585
      JmjC; JmjC domain, hydroxylase
      pfam02928
      Location:675 → 727
      zf-C5HC2; C5HC2 zinc finger
      pfam08429
      Location:740 → 1069
      PLU-1; PLU-1-like protein

    2. XM_040659239.2 → XP_040515173.1  lysine-specific demethylase 5A isoform X1

      UniProtKB/TrEMBL
      F1NN75, V9GWB8
      Conserved Domains (8) summary
      smart00545
      Location:18 → 59
      JmjN; Small domain found in the jumonji family of transcription factors
      cd15602
      Location:294 → 342
      PHD1_KDM5A; PHD finger 1 found in Lysine-specific demethylase 5A (KDM5A)
      cd15606
      Location:1163 → 1215
      PHD2_KDM5A; PHD finger 2 found in Lysine-specific demethylase 5A (KDM5A)
      cd15686
      Location:1608 → 1659
      PHD3_KDM5A; PHD finger 3 found in Lysine-specific demethylase 5A (KDM5A)
      cd16873
      Location:84 → 175
      ARID_KDM5A; ARID/BRIGHT DNA binding domain of lysine-specific demethylase 5A (KDM5A)
      pfam02373
      Location:469 → 585
      JmjC; JmjC domain, hydroxylase
      pfam02928
      Location:675 → 727
      zf-C5HC2; C5HC2 zinc finger
      pfam08429
      Location:740 → 1070
      PLU-1; PLU-1-like protein
    Nucleotide Protein Strain
    Heading Accession and Version

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