LOC102025724 (HLA class II histocompatibility antigen, DP alpha 1 chain) - Rat Genome Database

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Gene: LOC102025724 (HLA class II histocompatibility antigen, DP alpha 1 chain) Chinchilla lanigera
Analyze
Symbol: LOC102025724 (Ensembl: HLA-DPA1)
Name: HLA class II histocompatibility antigen, DP alpha 1 chain (Ensembl:major histocompatibility complex, class II, DP alpha 1)
RGD ID: 8984149
Description: ENCODES a protein that exhibits peptide antigen binding (ortholog); INVOLVED IN antigen processing and presentation of exogenous peptide antigen via MHC class II (ortholog); cellular response to type II interferon (ortholog); positive regulation of T cell activation (ortholog); ASSOCIATED WITH allergic asthma (ortholog); asthma (ortholog); Chronic Hepatitis B (ortholog); FOUND IN cell surface (ortholog); intracellular membrane-bounded organelle (ortholog); MHC class II protein complex (ortholog)
Type: protein-coding
RefSeq Status: MODEL
RGD Orthologs
Human
Mouse
Rat
Bonobo
Squirrel
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: ChiLan1.0 - Chinchilla ChiLan1.0 Assembly
Position:
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554371,643,238 - 1,651,071 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554371,644,037 - 1,657,094 (-)NCBIChiLan1.0ChiLan1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Transitive Annotation Pipeline Automated assignment of GO, PW and RDO ISO annotations across species
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
LOC102025724
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554371,643,238 - 1,651,071 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554371,644,037 - 1,657,094 (-)NCBIChiLan1.0ChiLan1.0
HLA-DPA1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38633,064,569 - 33,080,748 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl633,064,569 - 33,080,775 (-)EnsemblGRCh38hg38GRCh38
GRCh37633,032,346 - 33,048,525 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36633,140,772 - 33,149,356 (-)NCBINCBI36Build 36hg18NCBI36
Celera634,581,565 - 34,590,149 (-)NCBICelera
Cytogenetic Map6p21.32NCBI
HuRef632,774,786 - 32,790,995 (-)NCBIHuRef
CHM1_1633,034,023 - 33,050,238 (-)NCBICHM1_1
T2T-CHM13v2.0632,885,920 - 32,902,099 (-)NCBIT2T-CHM13v2.0
H2-Pa
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391734,303,587 - 34,304,826 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1734,303,575 - 34,304,797 (+)EnsemblGRCm39 Ensembl
GRCm381734,084,613 - 34,085,852 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1734,084,601 - 34,085,823 (+)EnsemblGRCm38mm10GRCm38
MGSCv371734,221,558 - 34,222,797 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361733,695,067 - 33,696,306 (+)NCBIMGSCv36mm8
Celera1736,830,794 - 36,832,033 (+)NCBICelera
Cytogenetic Map17B1NCBI
cM Map1717.98NCBI
RT1-Ha
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8204,762,425 - 4,772,439 (-)NCBIGRCr8
mRatBN7.2204,760,631 - 4,770,662 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl204,760,118 - 4,770,244 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx205,516,851 - 5,522,293 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0204,878,601 - 4,884,043 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0205,359,983 - 5,365,396 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0203,875,478 - 3,885,140 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl203,875,706 - 3,881,461 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0205,955,076 - 5,964,545 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4204,902,458 - 4,907,767 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera206,365,531 - 6,370,840 (-)NCBICelera
Cytogenetic Map20p12NCBI
LOC100995577
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2547,543,470 - 47,552,129 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1643,415,077 - 43,423,738 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0632,637,826 - 32,646,501 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1633,752,638 - 33,768,418 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl633,752,638 - 33,761,417 (-)Ensemblpanpan1.1panPan2
LOC101958908
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494638,209,458 - 38,216,760 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493647625,743,456 - 25,750,907 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493647625,743,512 - 25,750,809 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
MHC-DPA1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11739,009,361 - 39,017,978 (+)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366604432,881,227 - 32,886,122 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
LOC101698463
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462475423,674,448 - 23,683,662 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462475423,674,935 - 23,683,044 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSCLAT00000015678   ⟹   ENSCLAP00000015516
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_0049554371,643,238 - 1,651,071 (-)Ensembl
RefSeq Acc Id: XM_005389466   ⟹   XP_005389523
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_0049554371,644,037 - 1,651,071 (-)NCBI
Sequence:
RefSeq Acc Id: XM_005389467   ⟹   XP_005389524
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_0049554371,646,102 - 1,657,094 (-)NCBI
Sequence:
RefSeq Acc Id: XM_005389468   ⟹   XP_005389525
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_0049554371,644,037 - 1,657,094 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_005389523 (Get FASTA)   NCBI Sequence Viewer  
  XP_005389524 (Get FASTA)   NCBI Sequence Viewer  
  XP_005389525 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSCLAP00000015516
  ENSCLAP00000015516.1
RefSeq Acc Id: XP_005389525   ⟸   XM_005389468
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_005389523   ⟸   XM_005389466
- Peptide Label: isoform X1
- UniProtKB: A0A8C2VH04 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_005389524   ⟸   XM_005389467
- Peptide Label: isoform X2
- UniProtKB: A0A8C2VH04 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSCLAP00000015516   ⟸   ENSCLAT00000015678
Protein Domains
Ig-like


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCLAG00000010668 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCLAT00000015678 ENTREZGENE
  ENSCLAT00000015678.1 UniProtKB/TrEMBL
Gene3D-CATH 2.60.40.10 UniProtKB/TrEMBL
  Class II Histocompatibility Antigen, M Beta Chain, Chain B, domain 1 UniProtKB/TrEMBL
InterPro Ig-like_dom UniProtKB/TrEMBL
  Ig-like_dom_sf UniProtKB/TrEMBL
  Ig-like_fold UniProtKB/TrEMBL
  Ig/MHC_CS UniProtKB/TrEMBL
  Ig_C1-set UniProtKB/TrEMBL
  MHC/Immunoglobulin UniProtKB/TrEMBL
  MHC_I/II-like_Ag-recog UniProtKB/TrEMBL
  MHC_II_a/b_N UniProtKB/TrEMBL
  MHC_II_a_N UniProtKB/TrEMBL
NCBI Gene LOC102025724 ENTREZGENE
PANTHER HLA CLASS II HISTOCOMPATIBILITY ANTIGEN, DP ALPHA 1 CHAIN UniProtKB/TrEMBL
  MHC CLASS II-RELATED UniProtKB/TrEMBL
Pfam C1-set UniProtKB/TrEMBL
  MHC_II_alpha UniProtKB/TrEMBL
PROSITE IG_LIKE UniProtKB/TrEMBL
  IG_MHC UniProtKB/TrEMBL
SMART IGc1 UniProtKB/TrEMBL
  MHC_II_alpha UniProtKB/TrEMBL
Superfamily-SCOP SSF48726 UniProtKB/TrEMBL
  SSF54452 UniProtKB/TrEMBL
UniProt A0A8C2VH04 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-08-25 LOC102025724  HLA class II histocompatibility antigen, DP alpha 1 chain    HLA class II histocompatibility antigen, DP alpha 1 chain-like  Symbol and/or name change 5135510 APPROVED