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kdm4c lysine (K)-specific demethylase 4C [ Xenopus tropicalis (tropical clawed frog) ]

Gene ID: 100127653, updated on 8-Mar-2024

Summary

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Official Symbol
kdm4cprovided by Xenbase
Official Full Name
lysine (K)-specific demethylase 4Cprovided by Xenbase
Primary source
Xenbase:XB-GENE-1011534
See related
Ensembl:ENSXETG00000000532
Gene type
protein coding
RefSeq status
MODEL
Organism
Xenopus tropicalis
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Amphibia; Batrachia; Anura; Pipoidea; Pipidae; Xenopodinae; Xenopus; Silurana
Also known as
jmjd2c
Orthologs
human mouse all
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Genomic context

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Location:
chromosome: 1
Exon count:
22
Annotation release Status Assembly Chr Location
104 current UCB_Xtro_10.0 (GCF_000004195.4) 1 NC_030677.2 (126615742..126730399, complement)
103 previous assembly Xenopus_tropicalis_v9.1 (GCF_000004195.3) 1 NC_030677.1 (114377930..114492838, complement)

Chromosome 1 - NC_030677.2Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC101733619 Neighboring gene protein tyrosine phosphatase receptor type D Neighboring gene glycine decarboxylase Neighboring gene ubiquitin-like with PHD and ring finger domains 2, E3 ubiquitin protein ligase

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. Genetic and genomic tools for Xenopus research: The NIH Xenopus initiative. Klein SL, et al. Dev Dyn, 2002 Dec. PMID 12454917
  2. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article
  3. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

GeneRIFs: Gene References Into Functions

General gene information

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Homology

Gene Ontology Provided by Xenbase

Function Evidence Code Pubs
enables dioxygenase activity IEA
Inferred from Electronic Annotation
more info
  
enables histone H3K9 demethylase activity IEA
Inferred from Electronic Annotation
more info
  
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
enables oxidoreductase activity IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
acts_upstream_of_or_within chromatin organization IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
located_in intracellular organelle IEA
Inferred from Electronic Annotation
more info
  
located_in nucleus IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
lysine-specific demethylase 4C
XP_012808166.1
XP_012808168.1
XP_017944789.1

NCBI Reference Sequences (RefSeq)

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RefSeqs of Annotated Genomes: Xenopus tropicalis Annotation Release 104 details...Open this link in a new tab

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

Reference UCB_Xtro_10.0 Primary Assembly

Genomic

  1. NC_030677.2 Reference UCB_Xtro_10.0 Primary Assembly

    Range
    126615742..126730399 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_018089300.2 → XP_017944789.1  lysine-specific demethylase 4C isoform X3

    UniProtKB/TrEMBL
    A0A8J0SX89, A8KBF2, F7DJV2

  2. XM_012952712.3 → XP_012808166.1  lysine-specific demethylase 4C isoform X1

    UniProtKB/TrEMBL
    A0A8J0S9K3, A8KBF2, F7DJV2
    Related
    ENSXETP00000001154.5, ENSXETT00000001154.5
    Conserved Domains (5) summary
    smart00333
    Location:946 → 1001
    TUDOR; Tudor domain
    pfam02373
    Location:176 → 292
    JmjC; JmjC domain, hydroxylase
    cd15577
    Location:655 → 757
    PHD_JMJD2C; PHD finger found in Jumonji domain-containing protein 2C (JMJD2C)
    cl15840
    Location:15 → 56
    JmjN; jmjN domain
    cl22851
    Location:766 → 875
    PHD_SF; PHD finger superfamily

  3. XM_012952714.3 → XP_012808168.1  lysine-specific demethylase 4C isoform X2

    See identical proteins and their annotated locations for XP_012808168.1

    UniProtKB/TrEMBL
    A0A803KIP7, A8KBF2, F7DJV2
    Conserved Domains (5) summary
    cd15577
    Location:654 → 756
    PHD_JMJD2C; PHD finger found in Jumonji domain-containing protein 2C (JMJD2C)
    pfam02373
    Location:176 → 292
    JmjC; JmjC domain, hydroxylase
    pfam18104
    Location:892 → 926
    Tudor_2; Jumonji domain-containing protein 2A Tudor domain
    cl15840
    Location:15 → 56
    JmjN; jmjN domain
    cl22851
    Location:765 → 874
    PHD_SF; PHD finger superfamily

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_001112998.1: Suppressed sequence

    Description
    NM_001112998.1: This RefSeq was suppressed temporarily based on the calculation that the encoded protein was shorter than proteins from the putative ortholog from zebrafish: zgc:153957 (GeneID:570194).
Nucleotide Protein Strain
Heading Accession and Version

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