Hist1h2bg (histone cluster 1, H2bg) - Rat Genome Database

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Gene: Hist1h2bg (histone cluster 1, H2bg) Rattus norvegicus
Analyze
No known orthologs.
Symbol: Hist1h2bg
Name: histone cluster 1, H2bg
RGD ID: 621439
Description: Predicted to enable identical protein binding activity and lipopolysaccharide binding activity. Predicted to be involved in antimicrobial humoral immune response mediated by antimicrobial peptide; innate immune response in mucosa; and negative regulation of tumor necrosis factor-mediated signaling pathway. Predicted to be located in extracellular space; nucleus; and plasma membrane. Predicted to be part of CENP-A containing nucleosome. Orthologous to human H2BC5 (H2B clustered histone 5); PARTICIPATES IN systemic lupus erythematosus pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; ammonium chloride; bisphenol A.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: H2b; Hist1h2bl; histone 1, H2bl; histone 2b; histone cluster 1, H2bl; histone H2B type 1
RGD Orthologs
Alliance Orthologs
More Info homologs ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81741,999,269 - 42,000,237 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1741,998,640 - 42,000,585 (+)EnsemblGRCr8
mRatBN7.21741,571,234 - 41,572,202 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1741,571,210 - 41,571,896 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1741,651,956 - 41,652,336 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01743,256,015 - 43,256,395 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01741,530,443 - 41,530,823 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01743,817,316 - 43,817,717 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1743,817,378 - 43,817,720 (+)Ensemblrn6Rnor6.0
RGSC_v3.41748,771,873 - 48,772,253 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1741,202,088 - 41,202,468 (+)NCBICelera
RGSC_v3.11748,774,713 - 48,775,094 (+)NCBI
Cytogenetic Map17p11NCBI
JBrowse:




Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
chromosome  (IEA)
extracellular space  (IBA)
nucleoplasm  (TAS)
nucleosome  (IBA,IEA)
nucleus  (IBA,IEA)

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. Presence of a bi-directional S phase-specific transcription regulatory element in the promoter shared by testis-specific TH2A and TH2B histone genes. Huh NE, etal., Nucleic Acids Res 1991 Jan 11;19(1):93-8.
3. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
4. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
5. GOA pipeline RGD automated data pipeline
6. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
7. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:3666307   PMID:10524764   PMID:11319220   PMID:15632090   PMID:16283522   PMID:16996029   PMID:29476059   PMID:30053369   PMID:31686426   PMID:32357304   PMID:35352799   PMID:38580378  


Genomics

Variants

.
Variants in Hist1h2bg
17 total Variants

QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
8552966Pigfal18Plasma insulin-like growth factor 1 level QTL 188.7blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)171286094257860942Rat
1300123Bp194Blood pressure QTL 1942.82arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)17212084342054133Rat
2302377Scl61Serum cholesterol level QTL 614.36blood HDL cholesterol amount (VT:0000184)serum high density lipoprotein cholesterol level (CMO:0000361)17622199858177198Rat
1354654Spl7Serum phospholipid level QTL 75.5blood phospholipid amount (VT:0006084)blood phospholipid level (CMO:0001169)173803135483031354Rat
70157Niddm32Non-insulin dependent diabetes mellitus QTL 324.34blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)172266079955604694Rat
9589151Insul30Insulin level QTL 308.820.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)171286094257860942Rat
1598871Memor5Memory QTL 55.3exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)174096801789341781Rat
1354628Stl13Serum triglyceride level QTL 133.8blood triglyceride amount (VT:0002644)blood triglyceride level (CMO:0000118)172149899450592236Rat
1354629Scl31Serum cholesterol level QTL 314.1blood cholesterol amount (VT:0000180)blood total cholesterol level (CMO:0000051)173803135483031354Rat
1600398Edcs5Endometrial carcinoma susceptibility QTL 52.2uterus morphology trait (VT:0001120)percentage of study population developing endometrioid carcinoma during a period of time (CMO:0001759)173544694975762341Rat
1559055Bp278Blood pressure QTL 2780.04arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)172385892668858926Rat
9590154Scort9Serum corticosterone level QTL 923.570.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)171286094257860942Rat
152025238Slep14Serum leptin concentration QTL 144.62blood leptin amount (VT:0005667)172439059584432719Rat
1354638Insul1Insulin level QTL 14.8blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)173803135483031354Rat
1354635Bp245Blood pressure QTL 2456arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)173803135483031354Rat
1331765Hrtrt15Heart rate QTL 154.094heart pumping trait (VT:2000009)heart rate (CMO:0000002)171553702560531414Rat
7411666Foco31Food consumption QTL 3111.40.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)171286094257860942Rat
2303627Vencon8Ventilatory control QTL 80.001respiration trait (VT:0001943)tidal volume (CMO:0000222)17473353449733534Rat
4889955Bss93Bone structure and strength QTL 934.4tibia size trait (VT:0100001)tibia cortical bone volume to tibia total bone volume ratio (CMO:0001727)172723344565155015Rat
1300129Rf25Renal function QTL 253.03blood creatinine amount (VT:0005328)creatinine clearance (CMO:0000765)174106235286062352Rat
1354662Rf49Renal function QTL 492.9blood creatinine amount (VT:0005328)plasma creatinine level (CMO:0000537)17143999106Rat
1354663Bvd5Brain ventricular dilatation QTL 53.510.001brain ventricle morphology trait (VT:0000822)hydrocephalus severity score (CMO:0001881)173219953486201342Rat
152023740Bp406Blood pressure QTL 4066.06arterial blood pressure trait (VT:2000000)172413612784432719Rat
7488966Bp370Blood pressure QTL 3700.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)172385892668858926Rat
1354658Spl8Serum phospholipid level QTL 83.8blood VLDL phospholipid amount (VT:0010507)blood very low density lipoprotein phospholipid level (CMO:0001571)17143999106Rat
152023737Bp405Blood pressure QTL 4055.06arterial blood pressure trait (VT:2000000)2413612784432719Rat
152023736Bp404Blood pressure QTL 4043.78arterial blood pressure trait (VT:2000000)172413612784432719Rat
724528Uae4Urinary albumin excretion QTL 44.90.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)173604553781045537Rat
1354581Bp247Blood pressure QTL 2474.5arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)17143999106Rat
70210Cm15Cardiac mass QTL 156.5heart right ventricle mass (VT:0007033)heart right ventricle wet weight (CMO:0000072)173006647275066472Rat
152023626Bp403Blood pressure QTL 4033.86arterial blood pressure trait (VT:2000000)172413612784432719Rat
9590107Sffal7Serum free fatty acids level QTL 74.810.001blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)173310464578104645Rat
724549Niddm56Non-insulin dependent diabetes mellitus QTL 560.03blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)173219953449497050Rat
1581512Cm55Cardiac mass QTL 552.80.05heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)172723344583975845Rat
10054088Scort28Serum corticosterone level QTL 282.040.0102blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)17473353449733534Rat
61394Bp8Blood pressure QTL 82.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)172328632264246472Rat
9589057Scfw6Subcutaneous fat weight QTL 68.620.001subcutaneous adipose mass (VT:1000472)abdominal subcutaneous fat pad weight (CMO:0002069)171286094257860942Rat
2317045Aia11Adjuvant induced arthritis QTL 114.06joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)172652205171522051Rat
10450503Bp386Blood pressure QTL 3860.28arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)172201970567019705Rat
9590088Insglur7Insulin/glucose ratio QTL 720.380.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)171286094257860942Rat
2313854Bp343Blood pressure QTL 3433.9life span trait (VT:0005372)age at time of death (CMO:0001193)173219953455604694Rat
2317053Aia25Adjuvant induced arthritis QTL 252.69joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)171060469455604694Rat
8552928Pigfal9Plasma insulin-like growth factor 1 level QTL 99blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)173310464578104645Rat
12903980Cm120Cardiac mass QTL 1200.002heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)172385892668858926Rat
4889891Eae32Experimental allergic encephalomyelitis QTL 324.80.0002nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis severity score (CMO:0001419)172723344572233445Rat
12903981Am17Aortic mass QTL 170.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)172385892668858926Rat
12903982Kidm70Kidney mass QTL 700.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)172385892668858926Rat
12903978Cm118Cardiac mass QTL 1180.001heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)172385892668858926Rat
1354619Bp242Blood pressure QTL 2426.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)173768787782687877Rat
12903979Cm119Cardiac mass QTL 1190.001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)172385892668858926Rat


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
12 10 52 90 54 53 32 66 32 3 245 138 6 79 55 61 21 8 8

Sequence


Ensembl Acc Id: ENSRNOT00000079139
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1743,817,378 - 43,817,720 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000089643   ⟹   ENSRNOP00000069660
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1741,571,210 - 41,571,896 (+)Ensembl
RefSeq Acc Id: NM_022647   ⟹   NP_072173
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81741,999,269 - 42,000,237 (+)NCBI
mRatBN7.21741,571,234 - 41,572,202 (+)NCBI
RGSC_v3.41748,771,873 - 48,772,253 (+)RGD
Celera1741,202,088 - 41,202,468 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_072173 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAC98916 (Get FASTA)   NCBI Sequence Viewer  
  CAA42585 (Get FASTA)   NCBI Sequence Viewer  
  EDL86594 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000069660
GenBank Protein Q00715 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_072173   ⟸   NM_022647
- UniProtKB: G3V8B3 (UniProtKB/TrEMBL),   A6KLP6 (UniProtKB/TrEMBL),   G3V9C7 (UniProtKB/TrEMBL),   A0A8I6AGQ8 (UniProtKB/TrEMBL),   A6KNB9 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000069660   ⟸   ENSRNOT00000089643
Protein Domains
Histone H2A/H2B/H3

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q00715-F1-model_v2 AlphaFold Q00715 1-125 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:621439 AgrOrtholog
BioCyc Gene G2FUF-9358 BioCyc
Ensembl Genes ENSRNOG00000058263 Ensembl
  ENSRNOG00000070362 Ensembl, ENTREZGENE
Ensembl Transcript ENSRNOT00000089643 ENTREZGENE
Gene3D-CATH 1.10.20.10 UniProtKB/Swiss-Prot
InterPro Histone-fold UniProtKB/Swiss-Prot
  Histone_H2A/H2B/H3 UniProtKB/Swiss-Prot
  Histone_H2B UniProtKB/Swiss-Prot
  HISTONE_H2B_site UniProtKB/Swiss-Prot
KEGG Report rno:64647 UniProtKB/Swiss-Prot
NCBI Gene 64647 ENTREZGENE
PANTHER PTHR23428 UniProtKB/Swiss-Prot
Pfam Histone UniProtKB/Swiss-Prot
PhenoGen Hist1h2bg PhenoGen
PRINTS HISTONEH2B UniProtKB/Swiss-Prot
PROSITE HISTONE_H2B UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000058263 RatGTEx
  ENSRNOG00000070362 RatGTEx
SMART H2B UniProtKB/Swiss-Prot
Superfamily-SCOP SSF47113 UniProtKB/Swiss-Prot
UniProt A0A8I6AGQ8 ENTREZGENE
  A6KLP6 ENTREZGENE, UniProtKB/TrEMBL
  A6KNB9 ENTREZGENE, UniProtKB/TrEMBL
  G3V8B3 ENTREZGENE
  G3V9C7 ENTREZGENE
  H2B1_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-01-29 Hist1h2bg  histone cluster 1, H2bg  Hist1h2bl  histone cluster 1, H2bl  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-11-07 Hist1h2bl  histone cluster 1, H2bl    histone 1, H2bl  Name updated 1299863 APPROVED
2004-09-10 Hist1h2bl  histone 1, H2bl  H2b  histone 2b  Symbol and Name updated 1299863 APPROVED
2002-08-07 H2b  histone 2b      Symbol and Name status set to provisional 70820 PROVISIONAL