H3Y1 H3.Y histone 1 [Homo sapiens (human)] - Gene

Summary

Official Symbol: H3Y1provided by HGNC
Official Full Name: H3.Y histone 1provided by HGNC
Primary source: HGNC:HGNC:43735
See related: Ensembl:ENSG00000269466 AllianceGenome:HGNC:43735
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Homo sapiens
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as: H3.Y; H3.Y.1
Summary: Enables nucleosomal DNA binding activity. Located in nucleoplasm. Part of nucleosome. [provided by Alliance of Genome Resources, Oct 2024]
Orthologs: all
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Genomic context

Location:: 5p15.1

Exon count:: 1

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCh38.p14 (GCF_000001405.40)	5	NC_000005.10 (17654868..17655849, complement)
RS_2024_08	current	T2T-CHM13v2.0 (GCF_009914755.1)	5	NC_060929.1 (17655075..17656048, complement)
RS_2024_09	previous assembly	GRCh37.p13 (GCF_000001405.25)	5	NC_000005.9 (17654977..17655958, complement)

Chromosome 5 - NC_000005.10 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

DUX4-Induced Histone Variants H3.X and H3.Y Mark DUX4 Target Genes for Expression.
Title: DUX4-Induced Histone Variants H3.X and H3.Y Mark DUX4 Target Genes for Expression.
H3.Y discriminates between HIRA and DAXX chaperone complexes and reveals unexpected insights into human DAXX-H3.3-H4 binding and deposition requirements.
Title: H3.Y discriminates between HIRA and DAXX chaperone complexes and reveals unexpected insights into human DAXX-H3.3-H4 binding and deposition requirements.
ken together, H3.Y-containing nucleosomes around transcription start sites may form relaxed chromatin that allows transcription factor access, to regulate the transcription status of specific genes.
Title: Structure and function of human histone H3.Y nucleosome.

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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)

General gene information

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Gene Ontology Provided by GOA

Function	Evidence Code	Pubs
enables nucleosomal DNA binding	IDA Inferred from Direct Assay more info	PubMed
enables protein heterodimerization activity	IEA Inferred from Electronic Annotation more info
enables structural constituent of chromatin	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
located_in nucleoplasm	IDA Inferred from Direct Assay more info
part_of nucleosome	IDA Inferred from Direct Assay more info	PubMed
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info

General protein information

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Preferred Names: histone H3.Y

Names: H3 histone, family 3B (H3.3B) pseudogene; Histone H3.Y; histone H3.Y1; histone cluster 2, H3c pseudogene

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)

NM_001355258.2 → NP_001342187.1 histone H3.Y

Status: VALIDATED

Source sequence(s)

AC233724

Consensus CDS

CCDS87290.1

UniProtKB/Swiss-Prot

P0DPK2

Related

ENSP00000496014.2, ENST00000598383.3

Conserved Domains (1) summary

cl23735
Location:1 → 134

H4; Histone H4, one of the four histones, along with H2A, H2B and H3, which forms the eukaryotic nucleosome core; along with H3, it plays a central role in nucleosome formation; histones bind to DNA and wrap the genetic material into "beads on a string" in ...