H2bc1 H2B clustered histone 1 [Rattus norvegicus (Norway rat)] - Gene

Summary

Symbol: H2bc1provided by RGD
Full Name: H2B clustered histone 1provided by RGD
Primary source: RGD:3855
See related: EnsemblRapid:ENSRNOG00000084925 AllianceGenome:RGD:3855
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: Th2b; histone; Hist1h2ba
Summary: Enables DNA binding activity. Predicted to be involved in nucleosome assembly; nucleosome disassembly; and sperm DNA condensation. Predicted to act upstream of or within several processes, including chromatin organization; mononuclear cell migration; and plasminogen activation. Predicted to be located in cell surface and female germ cell nucleus. Predicted to be part of nucleosome. Orthologous to human H2BC1 (H2B clustered histone 1). [provided by Alliance of Genome Resources, Nov 2024]
Orthologs: human all
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Genomic context

Location:: 17p11

Exon count:: 1

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	17	NC_086035.1 (41599912..41600381)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	17	NC_051352.1 (41172041..41172510)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	17	NC_005116.4 (43423111..43423580)

Chromosome 17 - NC_086035.1 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?

TH2BS11ph is predominantly associated with H3K4me3 positive genomic regions like gene promoters, etc. TH2BS11ph modification could act alone or in concert with other histone modifications to recruit the appropriate transcription or XY body recombination protein machinery at specific genomic loci.
Title: TH2BS11ph histone mark is enriched in the unsynapsed axes of the XY body and predominantly associates with H3K4me3-containing genomic regions in mammalian spermatocytes.
Testis specific histone TH2B undergoes multiple post translational amino acid modification, suggesting the possibility of chromatin regulation.
Title: Mapping post-translational modifications of mammalian testicular specific histone variant TH2B in tetraploid and haploid germ cells and their implications on the dynamics of nucleosome structure.
Acetylated TH2B was most abundant in spermatogonia (28.9%) when compared with the spermatocytes (8.3%) and round spermatids (11.2%). Several new PTMs of TH2B were identified
Title: Mass spectrometry analysis of dynamic post-translational modifications of TH2B during spermatogenesis.

Submit: New GeneRIF Correction

General gene information

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Markers

Hist1h2bc (e-PCR), detects polymorphism
- UniSTS:259084

Gene Ontology Provided by RGD

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

Process	Evidence Code	Pubs
acts_upstream_of_or_within chromatin organization	ISO Inferred from Sequence Orthology more info
involved_in chromosome organization	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within chromosome organization	ISO Inferred from Sequence Orthology more info
involved_in inflammatory response	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within inflammatory response	ISO Inferred from Sequence Orthology more info
involved_in mononuclear cell migration	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within mononuclear cell migration	ISO Inferred from Sequence Orthology more info
involved_in nucleosome assembly	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within nucleosome assembly	ISO Inferred from Sequence Orthology more info
involved_in nucleosome assembly	ISO Inferred from Sequence Orthology more info
involved_in nucleosome assembly	ISS Inferred from Sequence or Structural Similarity more info
involved_in nucleosome disassembly	IEA Inferred from Electronic Annotation more info
involved_in nucleosome disassembly	ISO Inferred from Sequence Orthology more info
involved_in nucleosome disassembly	ISS Inferred from Sequence or Structural Similarity more info
involved_in plasminogen activation	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within plasminogen activation	ISO Inferred from Sequence Orthology more info
involved_in sperm DNA condensation	IEA Inferred from Electronic Annotation more info
involved_in sperm DNA condensation	ISO Inferred from Sequence Orthology more info
involved_in sperm DNA condensation	ISS Inferred from Sequence or Structural Similarity more info

Component	Evidence Code	Pubs
located_in cell surface	IEA Inferred from Electronic Annotation more info
located_in cell surface	ISO Inferred from Sequence Orthology more info
located_in female germ cell nucleus	IEA Inferred from Electronic Annotation more info
located_in female germ cell nucleus	ISO Inferred from Sequence Orthology more info
part_of nucleosome	IEA Inferred from Electronic Annotation more info
part_of nucleosome	ISO Inferred from Sequence Orthology more info
part_of nucleosome	ISS Inferred from Sequence or Structural Similarity more info
located_in nucleus	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: histone H2B type 1-A

Names: histone 1, H2ba; histone H2B, testis; histone cluster 1 H2B family member a; histone cluster 1, H2ba; testis-specific histone 2b; testis-specific histone H2B

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.