H3f3a H3.3 histone A [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: H3f3aprovided by RGD
Official Full Name: H3.3 histone Aprovided by RGD
Primary source: RGD:2319910
See related: EnsemblRapid:ENSRNOG00000003220 AllianceGenome:RGD:2319910
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary: Predicted to enable RNA polymerase II cis-regulatory region sequence-specific DNA binding activity; RNA polymerase II core promoter sequence-specific DNA binding activity; and nucleosomal DNA binding activity. Predicted to be a structural constituent of chromatin. Predicted to be involved in nucleosome assembly; oocyte maturation; and positive regulation of cell growth. Predicted to act upstream of or within several processes, including constitutive heterochromatin formation; negative regulation of chromosome condensation; and osteoblast differentiation. Predicted to be located in Barr body; chromosome, telomeric region; and nucleoplasm. Predicted to be part of inner kinetochore and nucleosome. Predicted to be active in chromatin and chromosome, centromeric region. Orthologous to human H3-3A (H3.3 histone A). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Biased expression in Spleen (RPKM 3017.8), Thymus (RPKM 2655.6) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 13q26

Exon count:: 4

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	13	NC_086031.1 (95065085..95076695, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	13	NC_051348.1 (92533289..92544902, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	13	NC_005112.4 (99091246..99102828, complement)

Chromosome 13 - NC_086031.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

The results of this study suggest that p-H3S10 could play a role in the response to injury.
Title: The mitogen and stress-activated protein kinase 1 regulates the rapid epigenetic tagging of dorsal horn neurons and nocifensive behaviour.

Submit: New GeneRIF Correction

General gene information

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Markers

H3f3a (e-PCR), detects polymorphism
- UniSTS:525689

WI-6046 (e-PCR)
- UniSTS:73465

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding	ISO Inferred from Sequence Orthology more info
enables RNA polymerase II core promoter sequence-specific DNA binding	ISO Inferred from Sequence Orthology more info
enables nucleosomal DNA binding	ISO Inferred from Sequence Orthology more info
enables protein heterodimerization activity	IEA Inferred from Electronic Annotation more info
enables structural constituent of chromatin	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in biological_process	ND No biological Data available more info
acts_upstream_of_or_within cell population proliferation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within multicellular organism growth	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within muscle cell differentiation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within negative regulation of chromosome condensation	ISO Inferred from Sequence Orthology more info
involved_in nucleosome assembly	ISO Inferred from Sequence Orthology more info
involved_in oocyte maturation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within oogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within osteoblast differentiation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within pericentric heterochromatin formation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of cell growth	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within single fertilization	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within spermatogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within subtelomeric heterochromatin formation	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in Barr body	ISO Inferred from Sequence Orthology more info
is_active_in chromatin	ISO Inferred from Sequence Orthology more info
is_active_in chromosome	ISO Inferred from Sequence Orthology more info
is_active_in chromosome, centromeric region	ISO Inferred from Sequence Orthology more info
located_in chromosome, telomeric region	ISO Inferred from Sequence Orthology more info
part_of inner kinetochore	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
part_of nucleosome	ISO Inferred from Sequence Orthology more info
located_in nucleus	ISO Inferred from Sequence Orthology more info
part_of protein-containing complex	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: H3.3 histone A

Names: H3 histone family member 3A; H3 histone, family 3A; histone H3.3; histone H3.3A; histone H3.3B-like

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.