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Gene: LOC101969065 (mamu class II histocompatibility antigen, DR alpha chain) Ictidomys tridecemlineatus

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Symbol:

LOC101969065 (Ensembl: HLA-DRA)

Name:

mamu class II histocompatibility antigen, DR alpha chain (Ensembl:major histocompatibility complex, class II, DR alpha)

RGD ID:

12554055

Description:

ENCODES a protein that exhibits peptide antigen binding (inferred); polysaccharide binding (inferred); T cell receptor binding (inferred); INVOLVED IN antigen processing and presentation of exogenous peptide antigen via MHC class II (ortholog); immunoglobulin mediated immune response (ortholog); positive regulation of immune response (ortholog); PARTICIPATES IN interleukin-12 signaling pathway; ASSOCIATED WITH allergic disease (ortholog); asthma (ortholog); Asthma and Nasal Polyps (ortholog); FOUND IN external side of plasma membrane (ortholog)

Type:

protein-coding

RefSeq Status:

RGD Orthologs

Alliance Orthologs

More Info

more info ...

Latest Assembly:

SpeTri2.0 - Squirrel SpeTri2.0 Assembly

Position:

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HiC_Itri_2	NW_024404946	37,016,438 - 37,021,225 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936727	540,217 - 545,036 (-)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936727	540,225 - 544,968 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View


allergic disease (ISO)	asthma (ISO)	Asthma and Nasal Polyps (ISO)
autoimmune thyroiditis (ISO)	bipolar disorder (ISO)	Diabetic Nephropathies (ISO)
Experimental Autoimmune Encephalomyelitis (ISO)	Experimental Liver Cirrhosis (ISO)	human immunodeficiency virus infectious disease (ISO)
late onset Parkinson's disease (ISO)	multiple sclerosis (ISO)	Parkinson's disease (ISO)
prediabetes syndrome (ISO)	proteasome-associated autoinflammatory syndrome 1 (ISO)	severe acute respiratory syndrome (ISO)
toxic shock syndrome (ISO)	type 1 diabetes mellitus (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process


adaptive immune response (IEA)	antigen processing and presentation (IEA)	antigen processing and presentation of endogenous peptide antigen via MHC class II (IEA)
antigen processing and presentation of exogenous peptide antigen via MHC class II (IEA,ISO)	antigen processing and presentation of peptide or polysaccharide antigen via MHC class II (IEA)	cognition (IEA)
immune response (IEA)	immune system process (IEA)	immunoglobulin mediated immune response (ISO)
myeloid dendritic cell antigen processing and presentation (IEA)	peptide antigen assembly with MHC class II protein complex (IEA)	positive regulation of CD4-positive, alpha-beta T cell activation (IEA)
positive regulation of CD4-positive, CD25-positive, alpha-beta regulatory T cell differentiation (IEA)	positive regulation of immune response (ISO)	positive regulation of memory T cell differentiation (IEA)
positive regulation of T cell mediated cytotoxicity (IEA)	regulation of immune system process (IEA)	regulation of T-helper cell differentiation (IEA)

Cellular Component


cell surface (IEA)	external side of plasma membrane (ISO)	immunological synapse (IEA)
late endosome membrane (IEA)	lysosomal membrane (IEA)	lysosome (IEA)
membrane (IEA)	MHC class II protein complex (IEA)	plasma membrane (IEA)

Molecular Function


peptide antigen binding (IEA)	polysaccharide binding (IEA)	protein binding (ISO)
T cell receptor binding (IEA)

Molecular Pathway Annotations Click to see Annotation Detail View


interleukin-12 signaling pathway (ISO)

References

Additional References at PubMed

PMID:22301074	PMID:30032202

Genomics

Comparative Map Data

LOC101969065
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HiC_Itri_2	NW_024404946	37,016,438 - 37,021,225 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936727	540,217 - 545,036 (-)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936727	540,225 - 544,968 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

HLA-DRA
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	6	32,439,887 - 32,445,046 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	6	32,439,878 - 32,445,046 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	6	32,407,664 - 32,412,823 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	6	32,515,625 - 32,520,801 (+)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	6	32,515,624 - 32,520,799	NCBI
Celera	6	33,973,612 - 33,978,821 (+)	NCBI		Celera
Cytogenetic Map	6	p21.32	NCBI
HuRef	6	32,160,529 - 32,165,737 (+)	NCBI		HuRef
CHM1_1	6	32,410,098 - 32,415,302 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	6	32,292,811 - 32,297,976 (+)	NCBI		T2T-CHM13v2.0

H2-Ea
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	17	34,560,926 - 34,563,619 (-)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	17	34,560,926 - 34,563,618 (-)	Ensembl		GRCm39 Ensembl
GRCm38	17	34,341,952 - 34,344,645 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	17	34,341,959 - 34,344,645 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	17	34,478,902 - 34,484,492 (-)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	17	34,479,157 - 34,481,590 (-)	NCBI		MGSCv36	mm8
Celera	17	37,104,259 - 37,109,038 (-)	NCBI		Celera
Cytogenetic Map	17	B1	NCBI
cM Map	17	17.98	NCBI

RT1-Da
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	20	4,515,393 - 4,520,387 (+)	NCBI		GRCr8
mRatBN7.2	20	4,513,464 - 4,518,457 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	20	4,512,911 - 4,518,455 (+)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	20	5,276,067 - 5,281,031 (+)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	20	4,637,807 - 4,642,772 (+)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	20	5,110,863 - 5,115,835 (+)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	20	4,127,644 - 4,132,616 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	20	4,127,644 - 4,132,616 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	20	6,207,782 - 6,212,754 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	20	4,636,310 - 4,641,282 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
Celera	20	6,115,646 - 6,120,618 (+)	NCBI		Celera
Cytogenetic Map	20	p12	NCBI

LOC102019320
(Chinchilla lanigera - long-tailed chinchilla)

Chinchilla Assembly	Chr	Position (strand)	Source	Genome Browsers
Chinchilla Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChiLan1.0 Ensembl	NW_004955437	1,109,713 - 1,114,802 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955437	1,109,735 - 1,114,742 (+)	NCBI	ChiLan1.0	ChiLan1.0

LOC100987081
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
NHGRI_mPanPan1-v2	5	46,921,122 - 46,926,280 (+)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	6	42,882,622 - 42,887,781 (+)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	6	32,105,421 - 32,110,579 (+)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	6	32,982,228 - 32,987,417 (+)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	6	32,982,228 - 32,987,417 (+)	Ensembl	panpan1.1		panPan2

DLA-DRA
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	12	2,133,026 - 2,137,825 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	12	2,132,499 - 2,168,975 (+)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	12	2,282,352 - 2,285,906 (+)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	12	2,409,388 - 2,414,180 (+)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	12	2,409,425 - 2,449,778 (+)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	12	2,132,677 - 2,136,225 (+)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	12	2,213,826 - 2,217,378 (+)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	12	2,287,866 - 2,291,417 (+)	NCBI		UU_Cfam_GSD_1.0

SLA-DRA
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	7	24,825,052 - 24,835,158 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	7	24,825,037 - 24,830,650 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	7	29,036,552 - 29,042,147 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3
Pig Cytomap	7	q1.1	NCBI

MHC-DRA
(Chlorocebus sabaeus - green monkey)

Green Monkey Assembly	Chr	Position (strand)	Source	Genome Browsers
Green Monkey Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	17	39,623,324 - 39,628,464 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	17	39,622,402 - 39,629,261 (-)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666044	32,311,484 - 32,316,629 (+)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

LOC101706353
(Heterocephalus glaber - naked mole-rat)

Naked Mole-Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Naked Mole-Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla_female_1.0 Ensembl	NW_004624754	24,079,366 - 24,084,512 (-)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624754	24,079,459 - 24,086,342 (-)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Expression

RNA-SEQ Expression

Click on a value in the shaded box below the category label to view a detailed expression data table for that system.

Sequence

Nucleotide Sequences


RefSeq Transcripts	XM_005338936	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	JAESOR010000005	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Ensembl Acc Id:

ENSSTOT00000010422 ⟹ ENSSTOP00000009353

Type:

CODING

Position:

Squirrel Assembly	Chr	Position (strand)	Source
SpeTri2.0 Ensembl	NW_004936727	540,217 - 545,036 (-)	Ensembl

RefSeq Acc Id:

XM_005338936 ⟹ XP_005338993

Type:

CODING

Position:

Squirrel Assembly	Chr	Position (strand)	Source
HiC_Itri_2	NW_024404946	37,016,438 - 37,021,225 (+)	NCBI
SpeTri2.0	NW_004936727	540,225 - 544,968 (-)	NCBI

Sequence:

show sequence

AGCTCTATTGACCCCCAATCAAAGCACTCTAAAAGAAAATGGCCAGAAACGAAGTCATGGTGTTAGGATTTTTCTTCATGGCTGTCCTGATGAGCCCTCAGGAATCATGGGCTATCAAAGAGGACCAT
ACCATCATCCAGGCAGAATTTTATCTGCACCCTGATGAATTAGGAGAGTTTATGTTTGACTTTGACGGTGATGAGATTTTCCATGTGGATTCGAAAATTAAGGAGACGGTCTGGAGGCTTAAAGAATT
CGGACAATTTGCCAGCTTTGAGGCTCAGGGTGCATTGGCCAATCTAGCTGTGGACAAAGCCAACCTAGACATCATGATGAAGCGCTCCAACAACACTTGGGACTCCAATGTGCCTCCAGAAGTGACGG
TGCTCTCCAGTGGCCCTGTAGAACTGGGAGAGCCCAATGTCCTGATTTGTTTCATCGACAAGTTCTCCCCTCCAGTGGTCAATGTCAGATGGCTTAAAAATGGACAGCCTGTCACCACAGGAGTATCA
GAGACAGTCTTCCTACCCAGAAAAGACCAACTTTTCCGCAAATTCCACTATCTCCCTTTCTTGCCCTCCAATGAAGACTTCTATGACTGCGAGGTGGACCACTTGGGTTTGGAGAGACCTCTTCTCAA
ACATTGGGCATTTGAAGACCAAACTCCACTACCAGAAACTAAAGAGAATGTGGTGTGTGCCCTGGGCCTGGTTGTGGGTCTAGTGGGCATCATCATGGGGACCATCTTCATCATCAAGGGCACGCAAA
AAAGCCATACAGGAGAACGCCGAGGGCCCCTGTGAGACAAGTGGAGGTGATGACCCTTCTTAGAAGATCAGTGAAGAAGTTTCTGCTTTACTAGCTTTCCAAAGCTGATGATACCAGTGTTCACCTCT
GTGAAAAAAGCCATATTCAGTCCTAAATTTCAAGACTGTGATGGCTTTCAAGACTGTGATGGCTTTTCCACCTCTCTGTATTCTAACAGCCTGCTGGGCTTCCTTGCCTACTGCCCCTTCCCTCTATT
TCCCATTGTTATCTTGGCACAATGCAATTCCTCTGGAATGAATCCCATAGGATTCTATCTCTGCAATGGAACATTCTGAACATTGCATAGAGACACCATCCTGTGTACTTATTGCTTAGAGTTTCTCC
AAACTGTTTTTTTTTAACATACAATAAAATATTTTGAATGTTTCTA

hide sequence

Protein Sequences


Protein RefSeqs	XP_005338993	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSSTOP00000009353.3
GenBank Protein	KAG3289171	(Get FASTA)	NCBI Sequence Viewer

RefSeq Acc Id:

XP_005338993 ⟸ XM_005338936

- UniProtKB:

I3MFG2 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MARNEVMVLGFFFMAVLMSPQESWAIKEDHTIIQAEFYLHPDELGEFMFDFDGDEIFHVDSKIKETVWRLKEFGQFASFEAQGALANLAVDKANLDIMMKRSNNTWDSNVPPEVTVLSSGPVELGEPN
VLICFIDKFSPPVVNVRWLKNGQPVTTGVSETVFLPRKDQLFRKFHYLPFLPSNEDFYDCEVDHLGLERPLLKHWAFEDQTPLPETKENVVCALGLVVGLVGIIMGTIFIIKGTQKSHTGERRGPL

hide sequence

Ensembl Acc Id:

ENSSTOP00000009353 ⟸ ENSSTOT00000010422

Protein Domains

Ig-like

Additional Information

External Database Links

Database	Acc Id	Source(s)
Ensembl Genes	ENSSTOG00000010426	Ensembl, UniProtKB/TrEMBL
Ensembl Transcript	ENSSTOT00000010422.3	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	LOC101969065	ENTREZGENE
PANTHER	HLA CLASS II HISTOCOMPATIBILITY ANTIGEN, DR ALPHA CHAIN-RELATED	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	I3MFG2	ENTREZGENE, UniProtKB/TrEMBL

Gene Annotator (Functional Annotation) unavailable	Gene Annotator (Annotation Distribution) unavailable	Variant Visualizer (Genomic Variants) unavailable


InterViewer (Protein-Protein Interactions) unavailable	Gviewer (Genome Viewer) unavailable	Variant Visualizer (Damaging Variants) unavailable


Gene Annotator (Annotation Comparison) unavailable	OLGA (Gene List Generator) unavailable
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Imported Disease Annotations - CTD

Imported Annotations - PID (archival)

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Imported Disease Annotations - ClinVar

Imported Disease Annotations - CTD

Imported Annotations - PID (archival)