B2m (beta-2-microglobulin) - Rat Genome Database

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Gene: B2m (beta-2-microglobulin) Chinchilla lanigera
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Symbol: B2m
Name: beta-2-microglobulin
RGD ID: 8991054
Description: ENCODES a protein that exhibits identical protein binding (ortholog); protein homodimerization activity (ortholog); structural molecule activity (ortholog); INVOLVED IN amyloid fibril formation (ortholog); antigen processing and presentation of endogenous peptide antigen via MHC class I (ortholog); antigen processing and presentation of exogenous protein antigen via MHC class Ib, TAP-dependent (ortholog); PARTICIPATES IN interleukin-12 signaling pathway; ASSOCIATED WITH acute kidney failure (ortholog); AGAT deficiency (ortholog); Albuminuria (ortholog); FOUND IN extracellular space; cytosol (ortholog); external side of plasma membrane (ortholog)
Type: protein-coding
RefSeq Status: MODEL
RGD Orthologs
Human
Mouse
Rat
Bonobo
Dog
Squirrel
Pig
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_00495541611,204,849 - 11,215,568 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495541611,205,503 - 11,211,325 (+)NCBIChiLan1.0ChiLan1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
amyloid fibril formation  (ISO)
antigen processing and presentation of endogenous peptide antigen via MHC class I  (ISO)
antigen processing and presentation of exogenous protein antigen via MHC class Ib, TAP-dependent  (ISO)
antimicrobial humoral immune response mediated by antimicrobial peptide  (ISO)
cellular response to iron ion  (ISO)
cellular response to iron(III) ion  (ISO)
cellular response to lipopolysaccharide  (ISO)
cellular response to nicotine  (ISO)
innate immune response  (ISO)
intracellular iron ion homeostasis  (ISO)
iron ion transport  (ISO)
learning or memory  (ISO)
multicellular organismal-level iron ion homeostasis  (ISO)
negative regulation of epithelial cell proliferation  (ISO)
negative regulation of forebrain neuron differentiation  (ISO)
negative regulation of neurogenesis  (ISO)
negative regulation of neuron projection development  (ISO)
peptide antigen assembly with MHC class I protein complex  (ISO)
positive regulation of cellular senescence  (ISO)
positive regulation of receptor-mediated endocytosis  (ISO)
positive regulation of T cell cytokine production  (ISO)
positive regulation of T cell mediated cytotoxicity  (ISO)
protein homotetramerization  (ISO)
protein refolding  (ISO)
regulation of erythrocyte differentiation  (ISO)
regulation of iron ion transport  (ISO)
regulation of membrane depolarization  (ISO)
response to cadmium ion  (ISO)
response to molecule of bacterial origin  (ISO)
response to xenobiotic stimulus  (ISO)
sensory perception of smell  (ISO)
T cell differentiation in thymus  (ISO)
T cell mediated cytotoxicity  (ISO)

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Transitive Annotation Pipeline Automated assignment of GO, PW and RDO ISO annotations across species
2. Seasonal fluctuations in plasma protein fraction levels of chinchillas (Chinchilla laniger, M.). Gromadzka-Ostrowska J and Zalewska B, Comp Biochem Physiol A Comp Physiol. 1985;80(2):215-24.
3. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
B2m
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541611,204,849 - 11,215,568 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495541611,205,503 - 11,211,325 (+)NCBIChiLan1.0ChiLan1.0
B2M
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381544,711,517 - 44,718,145 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1544,711,358 - 44,718,851 (+)EnsemblGRCh38hg38GRCh38
GRCh371545,003,715 - 45,010,343 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361542,790,977 - 42,797,649 (+)NCBINCBI36Build 36hg18NCBI36
Build 341542,790,976 - 42,797,649NCBI
Celera1521,893,442 - 21,900,114 (+)NCBICelera
Cytogenetic Map15q21.1NCBI
HuRef1521,827,296 - 21,833,968 (+)NCBIHuRef
CHM1_11545,121,781 - 45,128,453 (+)NCBICHM1_1
T2T-CHM13v2.01542,519,493 - 42,526,121 (+)NCBIT2T-CHM13v2.0
B2m
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm392121,978,168 - 121,983,563 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl2121,978,167 - 121,983,564 (+)EnsemblGRCm39 Ensembl
GRCm382122,147,687 - 122,153,082 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl2122,147,686 - 122,153,083 (+)EnsemblGRCm38mm10GRCm38
MGSCv372121,973,423 - 121,978,818 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv362121,839,128 - 121,844,523 (+)NCBIMGSCv36mm8
Celera2123,294,935 - 123,300,323 (+)NCBICelera
Cytogenetic Map2E5NCBI
cM Map260.55NCBI
B2m
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr83129,549,236 - 129,555,354 (+)NCBIGRCr8
mRatBN7.23109,095,740 - 109,101,764 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl3109,095,729 - 109,101,766 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx3112,769,695 - 112,775,711 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.03121,365,215 - 121,371,231 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.03119,025,591 - 119,031,607 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.03114,087,287 - 114,093,311 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3114,087,287 - 114,093,309 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.03120,627,499 - 120,633,523 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.43108,927,919 - 108,932,718 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.13108,833,491 - 108,838,291 (+)NCBI
Celera3107,993,988 - 108,000,012 (+)NCBICelera
RH 3.4 Map3954.3RGD
Cytogenetic Map3q35NCBI
B2M
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21633,960,617 - 33,967,276 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11538,122,948 - 38,129,633 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01523,668,108 - 23,674,791 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11541,836,321 - 41,842,991 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1541,836,345 - 41,842,991 (+)Ensemblpanpan1.1panPan2
B2M
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13011,331,574 - 11,337,991 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3011,331,569 - 11,337,997 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3011,388,144 - 11,392,829 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.03011,468,141 - 11,474,563 (+)NCBIROS_Cfam_1.0
UMICH_Zoey_3.13011,375,114 - 11,379,792 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03011,497,731 - 11,502,419 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03011,616,856 - 11,621,737 (+)NCBIUU_Cfam_GSD_1.0
B2m
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440864089,798,404 - 89,807,593 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364717,646,373 - 7,655,778 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049364717,646,504 - 7,655,656 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
B2M
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1126,835,143 - 126,981,582 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11126,837,721 - 126,844,043 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
B2M
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12638,331,818 - 38,338,785 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2638,331,442 - 38,338,809 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666048102,721,246 - 102,728,233 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
B2m
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462480411,514,728 - 11,521,625 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSCLAT00000015339   ⟹   ENSCLAP00000015179
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_00495541611,204,849 - 11,215,568 (+)Ensembl
RefSeq Acc Id: XM_005381424   ⟹   XP_005381481
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_00495541611,205,503 - 11,211,325 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_005381481 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSCLAP00000015179
  ENSCLAP00000015179.1
RefSeq Acc Id: XP_005381481   ⟸   XM_005381424
- UniProtKB: A0A8C2VGA9 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSCLAP00000015179   ⟸   ENSCLAT00000015339
Protein Domains
Ig-like


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCLAG00000010453 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCLAT00000015339 ENTREZGENE
  ENSCLAT00000015339.1 UniProtKB/TrEMBL
Gene3D-CATH 2.60.40.10 UniProtKB/TrEMBL
InterPro B2Microglobulin UniProtKB/TrEMBL
  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
NCBI Gene B2m ENTREZGENE
PANTHER MHC CLASS II-RELATED UniProtKB/TrEMBL
  PTHR19944:SF62 UniProtKB/TrEMBL
Pfam C1-set UniProtKB/TrEMBL
PROSITE IG_LIKE UniProtKB/TrEMBL
  IG_MHC UniProtKB/TrEMBL
SMART IGc1 UniProtKB/TrEMBL
Superfamily-SCOP SSF48726 UniProtKB/TrEMBL
UniProt A0A8C2VGA9 ENTREZGENE, UniProtKB/TrEMBL