H2AC1 (H2A clustered histone 1) - Rat Genome Database

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Gene: H2AC1 (H2A clustered histone 1) Canis lupus familiaris
Analyze
Symbol: H2AC1 (Ensembl: HIST1H2AA)
Name: H2A clustered histone 1
RGD ID: 12263106
Description: ENCODES a protein that exhibits DNA binding (inferred); protein heterodimerization activity (inferred); structural constituent of chromatin (inferred); INVOLVED IN chromatin organization (ortholog); FOUND IN chromosome (inferred); female germ cell nucleus (inferred); nucleosome (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: HIST1H2AA; histone cluster 1, H2aa; histone H2A type 1-A; histone H2A type 1-H
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Squirrel
Pig
Green Monkey
Alliance Orthologs
More Info more info ...
Latest Assembly: CanFam3.1 - Dog CanFam3.1 Assembly
Position:
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13523,677,141 - 23,677,728 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3523,677,318 - 23,677,713 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3523,579,697 - 23,580,587 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.03523,792,817 - 23,793,322 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3523,792,927 - 23,793,322 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13523,602,572 - 23,603,120 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03523,653,118 - 23,653,676 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03525,090,858 - 25,091,422 (-)NCBIUU_Cfam_GSD_1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
H2AC1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13523,677,141 - 23,677,728 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3523,677,318 - 23,677,713 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3523,579,697 - 23,580,587 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.03523,792,817 - 23,793,322 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3523,792,927 - 23,793,322 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13523,602,572 - 23,603,120 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03523,653,118 - 23,653,676 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03525,090,858 - 25,091,422 (-)NCBIUU_Cfam_GSD_1.0
H2AC1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38625,726,063 - 25,726,562 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl625,723,397 - 25,726,562 (-)EnsemblGRCh38hg38GRCh38
GRCh37625,726,291 - 25,726,790 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36625,834,270 - 25,834,769 (-)NCBINCBI36Build 36hg18NCBI36
Build 34625,834,269 - 25,834,769NCBI
Celera626,953,503 - 26,954,002 (-)NCBICelera
Cytogenetic Map6p22.2NCBI
HuRef625,669,273 - 25,669,772 (-)NCBIHuRef
CHM1_1625,728,498 - 25,728,997 (-)NCBICHM1_1
T2T-CHM13v2.0625,591,841 - 25,592,340 (-)NCBIT2T-CHM13v2.0
H2ac1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391324,118,420 - 24,118,896 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1324,118,445 - 24,118,834 (+)EnsemblGRCm39 Ensembl
GRCm381323,934,437 - 23,934,913 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1323,934,462 - 23,934,851 (+)EnsemblGRCm38mm10GRCm38
MGSCv371324,026,331 - 24,026,720 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361323,941,927 - 23,942,316 (+)NCBIMGSCv36mm8
Celera1324,166,147 - 24,166,536 (+)NCBICelera
Cytogenetic Map13A3.1NCBI
cM Map1310.0NCBI
H2ac1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81741,599,195 - 41,599,672 (-)NCBIGRCr8
mRatBN7.21741,171,324 - 41,171,801 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1741,135,489 - 41,172,022 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1741,238,750 - 41,239,142 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01742,842,796 - 42,843,188 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01741,127,112 - 41,127,504 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01743,422,454 - 43,422,846 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1743,422,454 - 43,422,846 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01745,279,292 - 45,279,684 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41748,289,528 - 48,289,920 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11748,292,368 - 48,292,761 (-)NCBI
Celera1740,803,000 - 40,803,392 (-)NCBICelera
Cytogenetic Map17p11NCBI
LOC102003136
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554831,358,588 - 1,358,983 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554831,358,562 - 1,359,048 (+)NCBIChiLan1.0ChiLan1.0
LOC100978953
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2540,371,635 - 40,373,701 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1636,373,052 - 36,375,136 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0625,560,820 - 25,561,293 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1625,886,573 - 25,887,064 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl625,886,620 - 25,887,015 (-)Ensemblpanpan1.1panPan2
LOC101970492
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_0244049461,905,084 - 1,905,534 (+)NCBIHiC_Itri_2
SpeTri2.0NW_0049366711,716,053 - 1,716,478 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
H2AC1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl720,464,408 - 20,464,803 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1720,463,528 - 20,464,825 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2721,764,337 - 21,764,820 (-)NCBISscrofa10.2Sscrofa10.2susScr3
LOC103222032
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11746,527,327 - 46,527,794 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1746,527,356 - 46,527,748 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604425,660,206 - 25,661,014 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0

Variants

.
Variants in H2AC1
21 total Variants

Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system reproductive system respiratory system adipose tissue
High
Medium
Low 1 1 8
Below cutoff 5 5 20 6 6 6 6 6 10 10 6

Sequence


Reference Sequences
RefSeq Acc Id: ENSCAFT00000037556   ⟹   ENSCAFP00000033090
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl3523,677,318 - 23,677,713 (-)Ensembl
RefSeq Acc Id: ENSCAFT00845042949   ⟹   ENSCAFP00845033666
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl3523,792,927 - 23,793,322 (-)Ensembl
RefSeq Acc Id: XM_038446514   ⟹   XP_038302442
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.03523,792,817 - 23,793,322 (-)NCBI
RefSeq Acc Id: XM_038520642   ⟹   XP_038376570
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.13523,602,572 - 23,603,120 (-)NCBI
RefSeq Acc Id: XM_038584309   ⟹   XP_038440237
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.03525,090,858 - 25,091,422 (-)NCBI
RefSeq Acc Id: XM_038648717   ⟹   XP_038504645
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.03523,653,118 - 23,653,676 (-)NCBI
RefSeq Acc Id: XM_545373   ⟹   XP_545373
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.13523,677,141 - 23,677,728 (-)NCBI
Dog10K_Boxer_Tasha3523,579,697 - 23,580,587 (-)NCBI
Sequence:
Reference Protein Sequences
RefSeq Acc Id: XP_545373   ⟸   XM_545373
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: ENSCAFP00000033090   ⟸   ENSCAFT00000037556
RefSeq Acc Id: XP_038376570   ⟸   XM_038520642
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038504645   ⟸   XM_038648717
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038302442   ⟸   XM_038446514
- Peptide Label: isoform X1
- UniProtKB: A0A8C0NXK7 (UniProtKB/TrEMBL),   A0A8I3PQ44 (UniProtKB/TrEMBL),   A0A8C0JM99 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038440237   ⟸   XM_038584309
- Peptide Label: isoform X1
- UniProtKB: A0A8C0JM99 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSCAFP00845033666   ⟸   ENSCAFT00845042949
Protein Domains
Histone H2A C-terminal   Histone H2A/H2B/H3


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCAFG00000024315 Ensembl
  ENSCAFG00030021121 UniProtKB/TrEMBL
  ENSCAFG00845024322 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCAFT00030038771.1 UniProtKB/TrEMBL
  ENSCAFT00845042949 ENTREZGENE
  ENSCAFT00845042949.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.20.10 UniProtKB/TrEMBL
InterPro Histone-fold UniProtKB/TrEMBL
  Histone_H2A UniProtKB/TrEMBL
  Histone_H2A/H2B/H3 UniProtKB/TrEMBL
  Histone_H2A_C UniProtKB/TrEMBL
  Histone_H2A_CS UniProtKB/TrEMBL
KEGG Report cfa:488251 UniProtKB/TrEMBL
NCBI Gene HIST1H2AA ENTREZGENE
PANTHER HISTONE H2A TYPE 1-C UniProtKB/TrEMBL
  PTHR23430 UniProtKB/TrEMBL
Pfam Histone UniProtKB/TrEMBL
  Histone_H2A_C UniProtKB/TrEMBL
PRINTS HISTONEH2A UniProtKB/TrEMBL
PROSITE HISTONE_H2A UniProtKB/TrEMBL
SMART H2A UniProtKB/TrEMBL
Superfamily-SCOP SSF47113 UniProtKB/TrEMBL
UniProt A0A8C0JM99 ENTREZGENE
  A0A8C0NXK7 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I3PQ44 ENTREZGENE, UniProtKB/TrEMBL
VGNC ID VGNC:83710 ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2019-11-05 H2AC1  H2A clustered histone 1  HIST1H2AA  histone cluster 1, H2aa  Symbol and/or name change 5135510 APPROVED