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    CDY2B chromodomain Y-linked 2B [ Homo sapiens (human) ]

    Gene ID: 203611, updated on 10-Dec-2024

    Summary

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    Official Symbol
    CDY2Bprovided by HGNC
    Official Full Name
    chromodomain Y-linked 2Bprovided by HGNC
    Primary source
    HGNC:HGNC:23921
    See related
    Ensembl:ENSG00000129873 AllianceGenome:HGNC:23921
    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
    CDY
    Summary
    This intronless gene encodes a protein containing a chromodomain and a histone acetyltransferase catalytic domain. Chromodomain proteins are components of heterochromatin-like complexes and can act as gene repressors. This protein is localized to the nucleus of late spermatids where histone hyperacetylation takes place. Histone hyperacetylation is thought to facilitate the transition in which protamines replace histones as the major DNA-packaging protein. Two nearly identical copies of this gene are found in a palindromic region on chromosome Y; this record represents the centromeric copy. Chromosome Y also contains a pair of closely related genes in another more telomeric palindrome as well as several related pseudogenes. [provided by RefSeq, Jul 2008]
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    Genomic context

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    See CDY2B in Genome Data Viewer
    Location:
    Yq11.222
    Exon count:
    1
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) Y NC_000024.10 (17878260..17880220, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) Y NC_060948.1 (18784818..18786778, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) Y NC_000024.9 (19990140..19992100, complement)

    Chromosome Y - NC_000024.10Genomic Context describing neighboring genes Neighboring gene OFD1 pseudogene 1 Y-linked Neighboring gene elongin C pseudogene 6 Neighboring gene chromodomain Y-linked 6 pseudogene Neighboring gene USP9Y pseudogene 7

    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. A fiber-FISH contig spanning the non-recombining region of the human Y chromosome. Röttger S, et al. Chromosome Res, 2002. PMID 12575791
    2. Comparative mapping of CDY and DAZ in higher primates. Wimmer R, et al. Cytogenet Genome Res, 2002. PMID 12438810
    3. Identification and characterization of the cynomolgus monkey chromodomain gene cynCDY, an orthologue of the human CDY gene family. Kostova E, et al. Mol Hum Reprod, 2002 Aug. PMID 12149400
    4. A long-range restriction map of deletion interval 6 of the human Y chromosome: a region frequently deleted in azoospermic males. Yen PH. Genomics, 1998 Nov 15. PMID 9806824
    5. Retroposition of autosomal mRNA yielded testis-specific gene family on human Y chromosome. Lahn BT, et al. Nat Genet, 1999 Apr. PMID 10192397

    See all (15) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Phenotypes

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    Review eQTL and phenotype association data in this region using PheGenI

    Variation

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    See variants in ClinVar

    See studies and variants in dbVar

    See Variation Viewer (GRCh37.p13)

    See Variation Viewer (GRCh38)

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Clone Names

    • MGC163298, MGC163300

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables histone H2AK5 acetyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables histone H2AK9 acetyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables histone H2BK12 acetyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables histone H2BK5 acetyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables histone H3K122 acetyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables histone H3K14 acetyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables histone H3K18 acetyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables histone H3K23 acetyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables histone H3K27 acetyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables histone H3K36 acetyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables histone H3K4 acetyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables histone H3K56 acetyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables histone H3K9 acetyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables histone H4K12 acetyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables histone H4K16 acetyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables histone H4K5 acetyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables histone H4K8 acetyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables transcription corepressor activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    involved_in chromatin remodeling IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in negative regulation of DNA-templated transcription IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in spermatogenesis TAS
    Traceable Author Statement
    more info
    		 PubMed 
    Component Evidence Code Pubs
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    testis-specific chromodomain protein Y 2
    Names
    Y chromosome chromodomain protein 2B
    chromodomain protein, Y chromosome, 2 related
    chromodomain protein, Y-linked, 2B
    testis-specific chromodomain protein Y protein 2 related
    NP_001001722.1

    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.

    mRNA and Protein(s)

    1. NM_001001722.2 → NP_001001722.1  testis-specific chromodomain protein Y 2

      See identical proteins and their annotated locations for NP_001001722.1

      Status: REVIEWED

      Source sequence(s)
      AC009976, BC069087
      Consensus CDS
      CCDS35473.1
      UniProtKB/Swiss-Prot
      A8K868, Q9Y6F7
      UniProtKB/TrEMBL
      A1L473
      Related
      ENSP00000372319.3, ENST00000382867.4
      Conserved Domains (2) summary
      cd06558
      Location:287 → 483
      crotonase-like; Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase. ...
      smart00298
      Location:5 → 58
      CHROMO; Chromatin organization modifier domain

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000024.10 Reference GRCh38.p14 Primary Assembly

      Range
      17878260..17880220 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060948.1 Alternate T2T-CHM13v2.0

      Range
      18784818..18786778 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9Y6F7.1 GenPept UniProtKB/Swiss-Prot:Q9Y6F7

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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