H3c10 (H3 clustered histone 10) - Rat Genome Database

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Gene: H3c10 (H3 clustered histone 10) Rattus norvegicus
Analyze
Symbol: H3c10 (Ensembl: Hist1h2ail1)
Name: H3 clustered histone 10 (Ensembl:histone cluster 1 H2a family member I like 1)
RGD ID: 1311554
Description: Predicted to enable DNA binding activity and protein heterodimerization activity. Predicted to be a structural constituent of chromatin. Predicted to be located in nucleus. Predicted to be part of nucleosome. Orthologous to several human genes including H3C6 (H3 clustered histone 6); INTERACTS WITH (-)-demecolcine (ortholog); 17beta-estradiol (ortholog); 2,3,7,8-tetrachlorodibenzodioxine (ortholog).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: H3 histone; Hist1h2ai; Hist1h2ail; Hist1h2ail1; histone 1, H2ai; histone cluster 1 H2a family member I like 1; histone cluster 1, H2ai; histone cluster 1, H2ai-like; histone cluster 1, H2ai-like1; histone H3.1; LOC291159
RGD Orthologs
Human
Mouse
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81741,996,216 - 41,997,128 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1747,493,820 - 47,494,861 (-)EnsemblGRCr8
GRCr8 Ensembl1741,995,811 - 41,997,685 (-)EnsemblGRCr8
mRatBN7.21741,568,181 - 41,569,093 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1741,568,471 - 41,569,109 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1741,649,350 - 41,649,760 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01743,253,409 - 43,253,819 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01741,527,835 - 41,528,245 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01743,814,773 - 43,815,183 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1743,814,773 - 43,815,183 (-)Ensemblrn6Rnor6.0
Rnor_5.01745,671,789 - 45,672,199 (-)NCBIRnor_5.0Rnor_5.0rn5
Celera1741,199,476 - 41,199,886 (-)NCBICelera
RGSC_v3.11748,771,191 - 48,771,314 (-)NCBI
Cytogenetic Map17p11NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
chromosome  (IEA)
extracellular exosome  (ISO)
nucleoplasm  (ISO,TAS)
nucleosome  (IBA,IEA,ISO)
nucleus  (IBA,IEA,ISO,ISS)
protein-containing complex  (ISO)

Molecular Function

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. GOA pipeline RGD automated data pipeline
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:8111130   PMID:9582357   PMID:12560483   PMID:14718166   PMID:16267050   PMID:19135898   PMID:19934035   PMID:19946888   PMID:20458337   PMID:20498094   PMID:21630459   PMID:21636898  
PMID:22152918   PMID:22720776   PMID:23376485   PMID:24699735   PMID:25468996   PMID:25615412   PMID:26388943  


Genomics

Comparative Map Data
H3c10
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81741,996,216 - 41,997,128 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1747,493,820 - 47,494,861 (-)EnsemblGRCr8
GRCr8 Ensembl1741,995,811 - 41,997,685 (-)EnsemblGRCr8
mRatBN7.21741,568,181 - 41,569,093 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1741,568,471 - 41,569,109 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1741,649,350 - 41,649,760 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01743,253,409 - 43,253,819 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01741,527,835 - 41,528,245 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01743,814,773 - 43,815,183 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1743,814,773 - 43,815,183 (-)Ensemblrn6Rnor6.0
Rnor_5.01745,671,789 - 45,672,199 (-)NCBIRnor_5.0Rnor_5.0rn5
Celera1741,199,476 - 41,199,886 (-)NCBICelera
RGSC_v3.11748,771,191 - 48,771,314 (-)NCBI
Cytogenetic Map17p11NCBI
H3C6
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38626,224,178 - 26,227,473 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl626,224,199 - 26,227,473 (+)Ensemblhg38GRCh38
GRCh37626,224,406 - 26,227,701 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36626,333,362 - 26,333,823 (+)NCBIBuild 36Build 36hg18NCBI36
Build 34626,333,361 - 26,333,823NCBI
Celera627,454,686 - 27,455,147 (+)NCBICelera
Cytogenetic Map6p22.2NCBI
HuRef626,168,383 - 26,168,844 (+)NCBIHuRef
CHM1_1626,227,544 - 26,228,005 (+)NCBICHM1_1
T2T-CHM13v2.0626,092,650 - 26,095,946 (+)NCBIT2T-CHM13v2.0
H3c10
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391321,901,798 - 21,902,285 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1321,901,829 - 21,902,239 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm381321,717,628 - 21,718,115 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1321,717,659 - 21,718,069 (+)Ensemblmm10GRCm38
MGSCv371321,809,497 - 21,809,984 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361321,725,093 - 21,725,580 (+)NCBIMGSCv36mm8
Celera1321,993,096 - 21,993,583 (+)NCBICelera
Cytogenetic Map13A3.1NCBI
cM Map137.94NCBI

Variants

.
Variants in H3c10
53 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:13
Count of miRNA genes:12
Interacting mature miRNAs:12
Transcripts:ENSRNOT00000073188
Prediction methods:Miranda, Rnahybrid
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


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
34 37 176 401 274 274 169 164 169 22 827 416 11 331 178 244 105 16 16

Sequence


Ensembl Acc Id: ENSRNOT00000101837   ⟹   ENSRNOP00000091493
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1741,995,811 - 41,997,685 (-)Ensembl
mRatBN7.2 Ensembl1741,568,471 - 41,569,109 (-)Ensembl
RefSeq Acc Id: NM_001013056   ⟹   NP_001013074
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81741,996,216 - 41,997,128 (-)NCBI
mRatBN7.21741,568,181 - 41,569,093 (-)NCBI
Rnor_6.01743,814,773 - 43,815,183 (-)NCBI
Rnor_5.01745,671,789 - 45,672,199 (-)NCBI
Celera1741,199,476 - 41,199,886 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001013074 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAA19824 (Get FASTA)   NCBI Sequence Viewer  
  EDL86592 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000080297.1
  ENSRNOP00000091493
  ENSRNOP00000091493.1
  ENSRNOP00000095460.1
  ENSRNOP00000096532.1
GenBank Protein Q6LED0 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_001013074   ⟸   NM_001013056
- UniProtKB: Q6LED0 (UniProtKB/Swiss-Prot),   A6KLL9 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000091493   ⟸   ENSRNOT00000101837
Protein Domains
Histone H2A/H2B/H3

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q6LED0-F1-model_v2 AlphaFold Q6LED0 1-136 view protein structure

Transcriptome

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

Promoters
RGD ID:13700469
Promoter ID:EPDNEW_R10993
Type:multiple initiation site
Name:Hist1h3a_1
Description:histone cluster 1 H3 family member A
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01743,815,200 - 43,815,260EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1311554 AgrOrtholog
BioCyc Gene G2FUF-9360 BioCyc
Ensembl Genes ENSRNOG00000046434 Ensembl
  ENSRNOG00000056281 Ensembl
  ENSRNOG00000063167 UniProtKB/Swiss-Prot
  ENSRNOG00000064755 Ensembl, UniProtKB/Swiss-Prot
  ENSRNOG00000068516 Ensembl, UniProtKB/Swiss-Prot
  ENSRNOG00000068614 UniProtKB/Swiss-Prot
  ENSRNOG00000087873 Ensembl, ENTREZGENE
Ensembl Transcript ENSRNOT00000094137.1 UniProtKB/Swiss-Prot
  ENSRNOT00000095973.1 UniProtKB/Swiss-Prot
  ENSRNOT00000101837 ENTREZGENE
  ENSRNOT00000101837.1 UniProtKB/Swiss-Prot
  ENSRNOT00000117255.1 UniProtKB/Swiss-Prot
Gene3D-CATH 1.10.20.10 UniProtKB/Swiss-Prot
InterPro Histone-fold UniProtKB/Swiss-Prot
  Histone_H2A/H2B/H3 UniProtKB/Swiss-Prot
  Histone_H3/CENP-A UniProtKB/Swiss-Prot
KEGG Report rno:291159 UniProtKB/Swiss-Prot
NCBI Gene 291159 ENTREZGENE
PANTHER PTHR11426 UniProtKB/Swiss-Prot
Pfam Histone UniProtKB/Swiss-Prot
PhenoGen H3c10 PhenoGen
PRINTS HISTONEH3 UniProtKB/Swiss-Prot
PROSITE HISTONE_H3_1 UniProtKB/Swiss-Prot
  HISTONE_H3_2 UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000046434 RatGTEx
  ENSRNOG00000056281 RatGTEx
  ENSRNOG00000063167 RatGTEx
  ENSRNOG00000064755 RatGTEx
  ENSRNOG00000068516 RatGTEx
  ENSRNOG00000068614 RatGTEx
  ENSRNOG00000087873 RatGTEx
SMART SM00428 UniProtKB/Swiss-Prot
Superfamily-SCOP SSF47113 UniProtKB/Swiss-Prot
UniProt A6KLL9 ENTREZGENE, UniProtKB/TrEMBL
  H31_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2025-07-14 H3c10  H3 clustered histone 10  Hist1h2ail1  histone cluster 1 H2a family member I like 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2017-05-23 Hist1h2ail1  histone cluster 1 H2a family member I like 1  Hist1h2ail1  histone cluster 1, H2ai-like1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2012-08-09 Hist1h2ail1  histone cluster 1, H2ai-like1  Hist1h2ail  histone cluster 1, H2ai-like  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-05-15 Hist1h2ail  histone cluster 1, H2ai-like  Hist1h2ai_predicted  histone cluster 1, H2ai (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-11-07 Hist1h2ai_predicted  histone cluster 1, H2ai (predicted)    histone 1, H2ai (predicted)  Name updated 1299863 APPROVED
2005-01-12 Hist1h2ai_predicted  histone 1, H2ai (predicted)      Symbol and Name status set to approved 70820 APPROVED