H2BC13 (H2B clustered histone 13) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models   new Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Gene: H2BC13 (H2B clustered histone 13) Sus scrofa
Analyze
Symbol: H2BC13
Name: H2B clustered histone 13
RGD ID: 14077694
Description: ENCODES a protein that exhibits enzyme binding (ortholog); STAT family protein binding (ortholog); ubiquitin-like protein ligase binding (ortholog); INVOLVED IN antimicrobial humoral immune response mediated by antimicrobial peptide (ortholog); innate immune response in mucosa (ortholog); FOUND IN cytosol (ortholog); extracellular space (ortholog); nucleoplasm (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: histone H2B type 1-H-like; LOC110261671
RGD Orthologs
Human
Mouse
Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: Sscrofa11.1 - Pig Sscrofa11.1 Assembly
Position:
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1721,582,043 - 21,582,522 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
H2BC13
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1721,582,043 - 21,582,522 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
H2BC9
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38626,251,614 - 26,252,075 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl626,251,614 - 26,252,075 (+)EnsemblGRCh38hg38GRCh38
GRCh37626,251,842 - 26,252,303 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36626,359,858 - 26,360,282 (+)NCBINCBI36Build 36hg18NCBI36
Build 34626,359,857 - 26,360,282NCBI
Celera627,481,186 - 27,481,610 (+)NCBICelera
Cytogenetic Map6p22.2NCBI
HuRef626,194,885 - 26,195,309 (+)NCBIHuRef
CHM1_1626,254,031 - 26,254,455 (+)NCBICHM1_1
T2T-CHM13v2.0626,120,085 - 26,120,546 (+)NCBIT2T-CHM13v2.0
H2bc9
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391323,727,093 - 23,727,614 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1323,725,884 - 23,727,562 (-)EnsemblGRCm39 Ensembl
GRCm381323,542,923 - 23,543,444 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1323,541,714 - 23,543,392 (-)EnsemblGRCm38mm10GRCm38
MGSCv371323,634,841 - 23,635,221 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361323,550,437 - 23,550,817 (-)NCBIMGSCv36mm8
Celera1323,774,907 - 23,775,287 (-)NCBICelera
Cytogenetic Map13A3.1NCBI
cM Map139.78NCBI
H2bc9
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81747,166,372 - 47,174,369 (-)NCBIGRCr8
mRatBN7.21742,470,593 - 42,478,590 (-)NCBImRatBN7.2mRatBN7.2
Rnor_6.01744,519,815 - 44,520,269 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1744,519,860 - 44,520,240 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01758,950,308 - 58,971,114 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41750,111,215 - 50,111,595 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1753,983,051 - 53,983,502 (+)NCBICelera
Cytogenetic Map17p11NCBI

Variants

.
Variants in H2BC13
47 total Variants

Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts XM_021099844 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AEMK02000052 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: XM_021099844   ⟹   XP_020955503
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1721,582,043 - 21,582,522 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_020955503 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSSSCP00030018848.1
  ENSSSCP00050004656.1
Reference Protein Sequences
RefSeq Acc Id: XP_020955503   ⟸   XM_021099844
- UniProtKB: A0A8D0WAB6 (UniProtKB/TrEMBL),   A0A8D1JYX1 (UniProtKB/TrEMBL)
- Sequence:
Protein Domains
Histone H2A/H2B/H3


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00030029847 UniProtKB/TrEMBL
  ENSSSCG00050007962 UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00030041468.1 UniProtKB/TrEMBL
  ENSSSCT00050010847.1 UniProtKB/TrEMBL
Gene3D-CATH Histone, subunit A UniProtKB/TrEMBL
InterPro Histone-fold UniProtKB/TrEMBL
  Histone_H2A/H2B/H3 UniProtKB/TrEMBL
  Histone_H2B UniProtKB/TrEMBL
NCBI Gene LOC110261671 ENTREZGENE
PANTHER HISTONE H2B UniProtKB/TrEMBL
  HISTONE H2B TYPE 1-J UniProtKB/TrEMBL
Pfam Histone UniProtKB/TrEMBL
PRINTS HISTONEH2B UniProtKB/TrEMBL
PROSITE HISTONE_H2B UniProtKB/TrEMBL
SMART H2B UniProtKB/TrEMBL
Superfamily-SCOP Histone-fold UniProtKB/TrEMBL
UniProt A0A8D0WAB6 ENTREZGENE, UniProtKB/TrEMBL
  A0A8D1JYX1 ENTREZGENE, UniProtKB/TrEMBL
VGNC ID VGNC:109819 ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2022-06-13 H2BC13  H2B clustered histone 13  LOC110261671  histone H2B type 1-H-like  Symbol and/or name change 19259463 PROVISIONAL