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KDM2B lysine demethylase 2B [ Bos taurus (domestic cattle) ]

Gene ID: 614487, updated on 4-Oct-2024

Summary

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Official Symbol
KDM2Bprovided by VGNC
Official Full Name
lysine demethylase 2Bprovided by VGNC
Primary source
VGNC:VGNC:30524
Gene type
protein coding
RefSeq status
MODEL
Organism
Bos taurus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Laurasiatheria; Artiodactyla; Ruminantia; Pecora; Bovidae; Bovinae; Bos
Also known as
FBXL10
Orthologs
human mouse all
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Genomic context

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See KDM2B in Genome Data Viewer
Location:
chromosome: 17
Exon count:
28
Annotation release Status Assembly Chr Location
RS_2023_09 current ARS-UCD2.0 (GCF_002263795.3) 17 NC_037344.1 (53650993..53769702)

Chromosome 17 - NC_037344.1Genomic Context describing neighboring genes Neighboring gene transfer RNA glutamic acid (anticodon UUC) Neighboring gene ORAI calcium release-activated calcium modulator 1 Neighboring gene uncharacterized LOC132342615 Neighboring gene ring finger protein 34 Neighboring gene tetraspanin-33-like Neighboring gene anaphase promoting complex subunit 5

Genomic regions, transcripts, and products

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Genomic Sequence:
NC_037344.1 Chromosome 17 Reference ARS-UCD2.0 Primary Assembly

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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Related articles in PubMed

  1. KDM2B is implicated in bovine lethal multi-organic developmental dysplasia. Testoni S, et al. PLoS One, 2012. PMID 23029151, Free PMC Article
  2. A whole-genome assembly of the domestic cow, Bos taurus. Zimin AV, et al. Genome Biol, 2009. PMID 19393038, Free PMC Article
  3. 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
  4. 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. genetic makeup of three inbred cattle strongly supports the causality of the KDM2B mutation
    Title: KDM2B is implicated in bovine lethal multi-organic developmental dysplasia.
Submit: New GeneRIF Correction

General gene information

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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 
enables protein binding IEA
Inferred from Electronic Annotation
more info
 PubMed 
enables transcription coregulator activity IEA
Inferred from Electronic Annotation
more info
 PubMed 
enables zinc ion binding IEA
Inferred from Electronic Annotation
more info
 PubMed 
Process Evidence Code Pubs
involved_in protein demethylation IEA
Inferred from Electronic Annotation
more info
 PubMed 
involved_in regulation of transcription by RNA polymerase II IEA
Inferred from Electronic Annotation
more info
 PubMed 

General protein information

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Preferred Names
lysine-specific demethylase 2B
Names
F-box and leucine-rich repeat protein 10
XP_005218040.1
XP_005218042.1
XP_024833479.1
XP_059732356.1
XP_059732357.1
XP_059732358.1
XP_059732359.1
XP_059732360.1
XP_059732361.1
XP_059732362.1

NCBI Reference Sequences (RefSeq)

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RefSeqs of Annotated Genomes: GCF_002263795.3-RS_2023_09

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

Reference ARS-UCD2.0 Primary Assembly

Genomic

  1. NC_037344.1 Reference ARS-UCD2.0 Primary Assembly

    Range
    53650993..53769702
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_059876377.1 → XP_059732360.1  lysine-specific demethylase 2B isoform X5

  2. XM_059876375.1 → XP_059732358.1  lysine-specific demethylase 2B isoform X3

  3. XM_005217983.5 → XP_005218040.1  lysine-specific demethylase 2B isoform X6

    See identical proteins and their annotated locations for XP_005218040.1

    Conserved Domains (7) summary
    cd09293
    Location:1091 → 1280
    AMN1; Antagonist of mitotic exit network protein 1
    smart00558
    Location:151 → 226
    JmjC; A domain family that is part of the cupin metalloenzyme superfamily
    pfam02008
    Location:588 → 624
    zf-CXXC; CXXC zinc finger domain
    sd00034
    Location:1075 → 1099
    LRR_AMN1; leucine-rich repeat [structural motif]
    cd15644
    Location:634 → 695
    PHD_KDM2B; PHD finger found in Lysine-specific demethylase 2B (KDM2B)
    pfam12937
    Location:1041 → 1081
    F-box-like; F-box-like
    cl21464
    Location:198 → 304
    cupin_like; Conserved domain found in cupin and related proteins

  4. XM_059876376.1 → XP_059732359.1  lysine-specific demethylase 2B isoform X4

  5. XM_005217985.2 → XP_005218042.1  lysine-specific demethylase 2B isoform X7

    See identical proteins and their annotated locations for XP_005218042.1

    Conserved Domains (7) summary
    cd09293
    Location:1085 → 1274
    AMN1; Antagonist of mitotic exit network protein 1
    smart00558
    Location:145 → 220
    JmjC; A domain family that is part of the cupin metalloenzyme superfamily
    pfam02008
    Location:582 → 618
    zf-CXXC; CXXC zinc finger domain
    sd00034
    Location:1069 → 1093
    LRR_AMN1; leucine-rich repeat [structural motif]
    cd15644
    Location:628 → 689
    PHD_KDM2B; PHD finger found in Lysine-specific demethylase 2B (KDM2B)
    pfam12937
    Location:1035 → 1075
    F-box-like; F-box-like
    cl21464
    Location:192 → 298
    cupin_like; Conserved domain found in cupin and related proteins

  6. XM_059876373.1 → XP_059732356.1  lysine-specific demethylase 2B isoform X1

  7. XM_059876374.1 → XP_059732357.1  lysine-specific demethylase 2B isoform X2

  8. XM_059876379.1 → XP_059732362.1  lysine-specific demethylase 2B isoform X8

  9. XM_024977711.2 → XP_024833479.1  lysine-specific demethylase 2B isoform X9

    Conserved Domains (6) summary
    pfam02008
    Location:388 → 424
    zf-CXXC; CXXC zinc finger domain
    sd00034
    Location:875 → 899
    LRR_AMN1; leucine-rich repeat [structural motif]
    cd15644
    Location:434 → 495
    PHD_KDM2B; PHD finger found in Lysine-specific demethylase 2B (KDM2B)
    pfam12937
    Location:841 → 879
    F-box-like
    cl21464
    Location:1 → 104
    cupin_like; Conserved domain found in cupin and related proteins
    cl28166
    Location:891 → 1080
    AMN1; Antagonist of mitotic exit network protein 1

  10. XM_059876378.1 → XP_059732361.1  lysine-specific demethylase 2B isoform X8

Nucleotide Protein Strain
Heading Accession and Version

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