LOC103222031 (histone H2B type 1-A) - Rat Genome Database

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Gene: LOC103222031 (histone H2B type 1-A) Chlorocebus sabaeus
Analyze
Symbol: LOC103222031 (Ensembl: H2BC1)
Name: histone H2B type 1-A (Ensembl:H2B clustered histone 1)
RGD ID: 18475036
Description: ENCODES a protein that exhibits DNA binding (ortholog); INVOLVED IN chromatin organization (ortholog); chromosome organization (ortholog); inflammatory response (ortholog); ASSOCIATED WITH genetic disease (ortholog); FOUND IN cell surface (inferred); chromosome (inferred); female germ cell nucleus (inferred)
Type: protein-coding
RefSeq Status: MODEL
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Alliance Genes
More Info more info ...
Latest Assembly: ChlSab1.1 - Green Monkey 1.1 Assembly
Position:
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11746,526,512 - 46,527,099 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1746,526,593 - 46,526,973 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604425,660,901 - 25,661,459 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

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
LOC103222031
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11746,526,512 - 46,527,099 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1746,526,593 - 46,526,973 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604425,660,901 - 25,661,459 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
H2BC1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38625,726,777 - 25,727,345 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl625,726,777 - 25,727,345 (+)EnsemblGRCh38hg38GRCh38
GRCh37625,727,005 - 25,727,573 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36625,835,116 - 25,835,552 (+)NCBINCBI36Build 36hg18NCBI36
Build 34625,835,115 - 25,835,552NCBI
Celera626,954,349 - 26,954,785 (+)NCBICelera
Cytogenetic Map6p22.2NCBI
HuRef625,670,119 - 25,670,555 (+)NCBIHuRef
CHM1_1625,729,344 - 25,729,780 (+)NCBICHM1_1
T2T-CHM13v2.0625,592,555 - 25,593,123 (+)NCBIT2T-CHM13v2.0
H2bc1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391324,117,708 - 24,118,139 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1324,117,756 - 24,118,139 (-)EnsemblGRCm39 Ensembl
GRCm381323,933,725 - 23,934,156 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1323,933,773 - 23,934,156 (-)EnsemblGRCm38mm10GRCm38
MGSCv371324,025,642 - 24,026,025 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361323,941,238 - 23,941,621 (-)NCBIMGSCv36mm8
Celera1324,165,458 - 24,165,841 (-)NCBICelera
Cytogenetic Map13A3.1NCBI
cM Map1310.0NCBI
H2bc1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81741,599,912 - 41,600,381 (+)NCBIGRCr8
mRatBN7.21741,172,041 - 41,172,510 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1741,171,903 - 41,176,782 (+)EnsemblmRatBN7.2 Ensembl
mRatBN7.2 Ensembl1741,171,903 - 41,176,782 (+)NCBImRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1741,239,407 - 41,239,876 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01742,843,453 - 42,843,922 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01741,127,769 - 41,128,238 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01743,423,111 - 43,423,580 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1743,423,111 - 43,423,580 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01745,279,949 - 45,280,418 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41748,290,185 - 48,290,654 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11748,293,025 - 48,293,495 (+)NCBI
Celera1740,803,657 - 40,804,126 (+)NCBICelera
Cytogenetic Map17p11NCBI
LOC102030314
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_0049554831,354,587 - 1,358,368 (-)NCBIChiLan1.0ChiLan1.0
LOC100979289
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2540,373,762 - 40,376,421 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1636,375,206 - 36,376,609 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0625,561,518 - 25,562,817 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1625,887,271 - 25,887,827 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl625,887,397 - 25,887,780 (+)Ensemblpanpan1.1panPan2
H2BC2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13523,690,580 - 23,691,133 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3523,690,707 - 23,691,090 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3523,593,121 - 23,593,664 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.03523,806,208 - 23,806,753 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3523,793,651 - 23,794,034 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13523,615,945 - 23,616,484 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03523,666,560 - 23,667,104 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03525,104,287 - 25,104,828 (-)NCBIUU_Cfam_GSD_1.0
LOC101970778
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_0244049461,902,475 - 1,905,102 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366711,716,778 - 1,717,161 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049366711,716,773 - 1,719,319 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
H2BC1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl720,465,129 - 20,465,512 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1720,465,043 - 20,466,398 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2721,765,030 - 21,776,800 (+)NCBISscrofa10.2Sscrofa10.2susScr3


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

endocrine system hemolymphoid system nervous system
High
Medium
Low 13
Below cutoff 1 4 1

Sequence

Nucleotide Sequences
RefSeq Transcripts XM_007973517 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide JACDXN010000012 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSCSAT00000019191   ⟹   ENSCSAP00000018611
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.1 Ensembl1746,526,593 - 46,526,973 (-)Ensembl
RefSeq Acc Id: XM_007973517   ⟹   XP_007971708
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.11746,526,512 - 46,527,099 (-)NCBI
Vero_WHO_p1.0NW_02366604425,660,901 - 25,661,459 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_007971708 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSCSAP00000018611
  ENSCSAP00000018611.1
Reference Protein Sequences
RefSeq Acc Id: XP_007971708   ⟸   XM_007973517
- UniProtKB: A0A0D9SCM2 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSCSAP00000018611   ⟸   ENSCSAT00000019191


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCSAG00000019101 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCSAT00000019191.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.20.10 UniProtKB/TrEMBL
InterPro Histone-fold UniProtKB/TrEMBL
  Histone_H2A/H2B/H3 UniProtKB/TrEMBL
  Histone_H2B UniProtKB/TrEMBL
KEGG Report csab:103222031 UniProtKB/TrEMBL
NCBI Gene LOC103222031 ENTREZGENE
PANTHER HISTONE H2B TYPE 1-A UniProtKB/TrEMBL
  PTHR23428 UniProtKB/TrEMBL
Pfam Histone UniProtKB/TrEMBL
PRINTS HISTONEH2B UniProtKB/TrEMBL
PROSITE HISTONE_H2B UniProtKB/TrEMBL
SMART H2B UniProtKB/TrEMBL
Superfamily-SCOP SSF47113 UniProtKB/TrEMBL
UniProt A0A0D9SCM2 ENTREZGENE, UniProtKB/TrEMBL