CDY2A chromodomain Y-linked 2A [Homo sapiens (human)] - Gene

Summary

Official Symbol: CDY2Aprovided by HGNC
Official Full Name: chromodomain Y-linked 2Aprovided by HGNC
Primary source: HGNC:HGNC:1810
See related: Ensembl:ENSG00000182415 MIM:400018; AllianceGenome:HGNC:1810
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; CDY2
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 telomeric 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

Location:: Yq11.222

Exon count:: 1

Annotation release	Status	Assembly	Chr	Location
RS_2023_10	current	GRCh38.p14 (GCF_000001405.40)	Y	NC_000024.10 (18025787..18027746)
RS_2023_10	current	T2T-CHM13v2.0 (GCF_009914755.1)	Y	NC_060948.1 (18932262..18934221)
105.20220307	previous assembly	GRCh37.p13 (GCF_000001405.25)	Y	NC_000024.9 (20137667..20139626)

Chromosome Y - NC_000024.10 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

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Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

data indicate that CDY2 and HSFY are located within a segment of the Y chromosome that is important for sperm maturation, and are underexpressed in testicular tissue derived from men with maturation arrest
Title: Deletion or underexpression of the Y-chromosome genes CDY2 and HSFY is associated with maturation arrest in American men with nonobstructive azoospermia.

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Phenotypes

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Review eQTL and phenotype association data in this region using PheGenI

Associated conditions

Description	Tests
Spermatogenic failure, Y-linked, 2 MedGen: C1839071 OMIM: 415000 GeneReviews: Y Chromosome Infertility	Compare labs

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

sY639 (e-PCR)
- UniSTS:243208

G38355 (e-PCR)
- UniSTS:43279

sY1262 (e-PCR)
- UniSTS:514654

G65845 (e-PCR)
- UniSTS:230511

sY1260 (e-PCR)
- UniSTS:478845

G65871 (e-PCR)
- UniSTS:230537

Gene Ontology Provided by GOA

Function	Evidence Code	Pubs
enables histone 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 2A; chromodomain protein, Y chromosome, 2; chromodomain protein, Y-linked, 2A

NP_004816.1

EC 2.3.1.48

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.

Genomic

NG_032921.1 RefSeqGene

Range

5001..6960

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_004825.2 → NP_004816.1 testis-specific chromodomain protein Y 2

See identical proteins and their annotated locations for NP_004816.1

Status: REVIEWED

Source sequence(s)

AC009976

Consensus CDS

CCDS14789.1

UniProtKB/Swiss-Prot

A8K868, Q9Y6F7

UniProtKB/TrEMBL

A1L473

Related

ENSP00000250838.4, ENST00000250838.6

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