Ms4a1 (membrane spanning 4-domains A1) - Rat Genome Database

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Gene: Ms4a1 (membrane spanning 4-domains A1) Rattus norvegicus
Analyze
Symbol: Ms4a1
Name: membrane spanning 4-domains A1
RGD ID: 1311999
Description: Enables epidermal growth factor receptor binding activity. Predicted to be involved in several processes, including B cell receptor signaling pathway; calcium ion transport; and positive regulation of calcium ion import across plasma membrane. Predicted to act upstream of or within response to bacterium. Predicted to be located in cell surface; nucleoplasm; and plasma membrane raft. Predicted to be active in external side of plasma membrane. Biomarker of glomerulonephritis. Human ortholog(s) of this gene implicated in common variable immunodeficiency 5. Orthologous to human MS4A1 (membrane spanning 4-domains A1); INTERACTS WITH 1-naphthyl isothiocyanate; 17beta-estradiol; 17beta-estradiol 3-benzoate.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: B-lymphocyte antigen CD20; Cd20; LOC309217; membrane-spanning 4-domains, subfamily A, member 1
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81217,331,274 - 217,351,934 (-)NCBIGRCr8
mRatBN7.21207,906,370 - 207,927,028 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1207,906,374 - 207,918,512 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1216,281,228 - 216,293,400 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01223,345,173 - 223,357,355 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01216,035,633 - 216,047,806 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01227,429,241 - 227,441,492 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1227,429,596 - 227,441,442 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01234,494,128 - 234,506,370 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41213,763,696 - 213,770,756 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11213,921,879 - 213,934,027 (-)NCBI
Celera1205,381,782 - 205,388,842 (-)NCBICelera
Cytogenetic Map1q43NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model



  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Ms4a1RatB-Cell Chronic Lymphocytic Leukemia  ISOMS4A1 (Homo sapiens)2316994 RGD 
Ms4a1Ratglomerulonephritis  IEP 2316995protein:increased expression:kidney and glomerulus (rat)RGD 
Ms4a1RatMycoplasma pneumoniae pneumonia severityISOMS4A1 (Homo sapiens)9068941 RGDPMID:28302172 and REF_RGD_ID:32716376
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Ms4a1Ratcommon variable immunodeficiency 5  ISOMS4A1 (Homo sapiens)8554872ClinVar more ...ClinVarPMID:25741868 and PMID:28492532
Ms4a1Ratintellectual disability  ISOMS4A1 (Homo sapiens)8554872ClinVar Annotator: match by term: Intellectual disabilityClinVar 
Ms4a1Ratleukocyte adhesion deficiency 3  ISOMS4A1 (Homo sapiens)8554872ClinVar Annotator: match by term: Leukocyte adhesion deficiency 3ClinVarPMID:28492532
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Ms4a1Ratcommon variable immunodeficiency  ISOMS4A1 (Homo sapiens)11554173CTD Direct Evidence: marker/mechanismCTD 
Ms4a1Ratlung adenocarcinoma  ISOMS4A1 (Homo sapiens)11554173CTD Direct Evidence: marker/mechanismCTDPMID:22514692
Ms4a1Ratlung non-small cell carcinoma  ISOMS4A1 (Homo sapiens)11554173CTD Direct Evidence: marker/mechanismCTDPMID:22514692
Ms4a1Ratovarian cyst  ISOMS4A1 (Homo sapiens)11554173CTD Direct Evidence: marker/mechanismCTDPMID:21239663
Ms4a1Ratsquamous cell carcinoma  ISOMS4A1 (Homo sapiens)11554173CTD Direct Evidence: marker/mechanismCTDPMID:22514692
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Ms4a1Ratcommon variable immunodeficiency 5  ISOMS4A1 (Homo sapiens)7240710 OMIM 

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Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Ms4a1Rat1,2-dimethylhydrazine increases expressionISOMs4a1 (Mus musculus)64804641 and 2-Dimethylhydrazine results in increased expression of MS4A1 mRNACTDPMID:22206623
Ms4a1Rat1-naphthyl isothiocyanate decreases expressionEXP 64804641-Naphthylisothiocyanate results in decreased expression of MS4A1 mRNACTDPMID:30723492
Ms4a1Rat17beta-estradiol multiple interactionsISOMS4A1 (Homo sapiens)6480464[Estradiol co-treated with Norethindrone Acetate] results in decreased expression of MS4A1 mRNACTDPMID:22217510
Ms4a1Rat17beta-estradiol multiple interactionsEXP 6480464[estradiol 3-benzoate co-treated with [Testosterone co-treated with Estradiol]] results in increased expression of MS4A1 mRNACTDPMID:32741896
Ms4a1Rat17beta-estradiol 3-benzoate multiple interactionsEXP 6480464[estradiol 3-benzoate co-treated with [Testosterone co-treated with Estradiol]] results in increased expression of MS4A1 mRNACTDPMID:32741896
Ms4a1Rat2,3',4,4',5-Pentachlorobiphenyl increases expressionISOMs4a1 (Mus musculus)64804642 more ...CTDPMID:31388691
Ms4a1Rat2,3,7,8-tetrachlorodibenzodioxine affects expressionISOMs4a1 (Mus musculus)6480464Tetrachlorodibenzodioxin affects the expression of MS4A1 mRNACTDPMID:26377647
Ms4a1Rat2,4-dibromophenyl 2,4,5-tribromophenyl ether affects expressionISOMs4a1 (Mus musculus)64804642 more ...CTDPMID:38648751
Ms4a1Rat4,4'-sulfonyldiphenol decreases expressionISOMs4a1 (Mus musculus)6480464bisphenol S results in decreased expression of MS4A1 mRNACTDPMID:39298647
Ms4a1Rat4-hydroxyphenyl retinamide decreases expressionISOMs4a1 (Mus musculus)6480464Fenretinide results in decreased expression of MS4A1 mRNACTDPMID:28973697
Ms4a1Rataflatoxin B1 decreases methylationISOMS4A1 (Homo sapiens)6480464Aflatoxin B1 results in decreased methylation of MS4A1 geneCTDPMID:27153756
Ms4a1Rataldehydo-D-glucose multiple interactionsISOMs4a1 (Mus musculus)6480464[lard co-treated with Cholesterol more ...CTDPMID:37567420
Ms4a1Ratalpha-Zearalanol increases expressionEXP 6480464Zeranol results in increased expression of MS4A1 mRNACTDPMID:35163327
Ms4a1Ratarsane decreases expressionISOMs4a1 (Mus musculus)6480464Arsenic results in decreased expression of MS4A1 mRNACTDPMID:19654921
Ms4a1Ratarsenic atom decreases expressionISOMs4a1 (Mus musculus)6480464Arsenic results in decreased expression of MS4A1 mRNACTDPMID:19654921
Ms4a1Ratasbestos affects response to substanceISOMS4A1 (Homo sapiens)6480464MS4A1 mRNA affects the susceptibility to AsbestosCTDPMID:22514692
Ms4a1Ratbenzo[a]pyrene decreases expressionISOMs4a1 (Mus musculus)6480464Benzo(a)pyrene results in decreased expression of MS4A1 mRNACTDPMID:21569818
Ms4a1Ratbenzo[a]pyrene increases methylationISOMS4A1 (Homo sapiens)6480464Benzo(a)pyrene results in increased methylation of MS4A1 5' UTR more ...CTDPMID:27901495
Ms4a1Ratbenzo[a]pyrene multiple interactionsISOMs4a1 (Mus musculus)6480464[Benzo(a)pyrene co-treated with benz(a)anthracene co-treated with benzo(b)fluoranthene co-treated with chrysene] results in increased expression of MS4A1 mRNACTDPMID:27858113
Ms4a1Ratbenzo[b]fluoranthene multiple interactionsISOMs4a1 (Mus musculus)6480464[Benzo(a)pyrene co-treated with benz(a)anthracene co-treated with benzo(b)fluoranthene co-treated with chrysene] results in increased expression of MS4A1 mRNACTDPMID:27858113

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Biological Process
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Object Symbol
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Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Ms4a1RatB cell activation involved_inISOMS4A1 (Homo sapiens)1624291 PMID:3925015RGDPMID:3925015
Ms4a1RatB cell activation involved_inIEAUniProtKB:P11836 and ensembl:ENSP000003146201600115GO_REF:0000107EnsemblGO_REF:0000107
Ms4a1RatB cell differentiation involved_inISOMS4A1 (Homo sapiens)1624291 PMID:3925015RGDPMID:3925015
Ms4a1RatB cell differentiation involved_inIEAUniProtKB:P11836 and ensembl:ENSP000003146201600115GO_REF:0000107EnsemblGO_REF:0000107
Ms4a1RatB cell receptor signaling pathway involved_inISOMS4A1 (Homo sapiens)1624291 PMID:18474602RGDPMID:18474602
Ms4a1RatB cell receptor signaling pathway involved_inIEAUniProtKB:P11836 and ensembl:ENSP000003146201600115GO_REF:0000107EnsemblGO_REF:0000107
Ms4a1Ratbiological_process  ND 159840703/2010:no relevant rat dataRGD 
Ms4a1Ratcalcium ion import into cytosol involved_inISOMS4A1 (Homo sapiens)1624291 PMID:7684739RGDPMID:7684739
Ms4a1Ratcalcium ion import into cytosol involved_inIEAUniProtKB:P11836 and ensembl:ENSP000003146201600115GO_REF:0000107EnsemblGO_REF:0000107
Ms4a1Ratcell surface receptor signaling pathway involved_inIBAMGI:95495 more ...1600115GO_REF:0000033GO_CentralGO_REF:0000033
Ms4a1Ratpositive regulation of calcium ion import across plasma membrane involved_inISOMs4a1 (Mus musculus)1624291 PMID:14688067RGDPMID:14688067
Ms4a1Ratpositive regulation of calcium ion import across plasma membrane involved_inIEAUniProtKB:P19437 and ensembl:ENSMUSP000001264221600115GO_REF:0000107EnsemblGO_REF:0000107
Ms4a1Ratprotein tetramerization involved_inISOMS4A1 (Homo sapiens)1624291 PMID:18474602 and PMID:7684739RGDPMID:18474602 and PMID:7684739
Ms4a1Ratprotein tetramerization involved_inIEAUniProtKB:P11836 and ensembl:ENSP000003146201600115GO_REF:0000107EnsemblGO_REF:0000107
Ms4a1Ratresponse to bacterium acts_upstream_of_or_withinIEAUniProtKB:P19437 and ensembl:ENSMUSP000001264221600115GO_REF:0000107EnsemblGO_REF:0000107
Ms4a1Ratresponse to bacterium acts_upstream_of_or_withinISOMs4a1 (Mus musculus)1624291 PMID:23012479RGDPMID:23012479
Ms4a1Ratstore-operated calcium entry involved_inISOMS4A1 (Homo sapiens)1624291 PMID:12920111RGDPMID:12920111
Ms4a1Ratstore-operated calcium entry involved_inIEAUniProtKB:P11836 and ensembl:ENSP000003146201600115GO_REF:0000107EnsemblGO_REF:0000107
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Cellular Component
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Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Ms4a1Ratcell surface located_inISOMS4A1 (Homo sapiens)1624291 PMID:3925015RGDPMID:3925015
Ms4a1Ratcell surface located_inIEAUniProtKB:P11836 and ensembl:ENSP000003146201600115GO_REF:0000107EnsemblGO_REF:0000107
Ms4a1Ratexternal side of plasma membrane is_active_inIBAMGI:88321 and PANTHER:PTN0005946791600115GO_REF:0000033GO_CentralGO_REF:0000033
Ms4a1Ratexternal side of plasma membrane located_inIEAUniProtKB:P19437 and ensembl:ENSMUSP000001264221600115GO_REF:0000107EnsemblGO_REF:0000107
Ms4a1Ratexternal side of plasma membrane located_inISOMs4a1 (Mus musculus)1624291 PMID:19723499RGDPMID:19723499
Ms4a1Ratmembrane located_inIEAInterPro:IPR0072371600115GO_REF:0000002InterProGO_REF:0000002
Ms4a1Ratmembrane located_inIEAUniProtKB-SubCell:SL-01621600115GO_REF:0000044UniProtGO_REF:0000044
Ms4a1Ratnucleoplasm located_inIEAUniProtKB:P11836 and ensembl:ENSP000003146201600115GO_REF:0000107EnsemblGO_REF:0000107
Ms4a1Ratnucleoplasm located_inISOMS4A1 (Homo sapiens) more ...1624291 RGDGO_REF:0000052
Ms4a1Ratplasma membrane located_inISOMS4A1 (Homo sapiens)1624291 PMID:23874341RGDPMID:23874341
Ms4a1Ratplasma membrane located_inIEAUniProtKB:P11836 and ensembl:ENSP000003146201600115GO_REF:0000107EnsemblGO_REF:0000107
Ms4a1Ratplasma membrane is_active_inIBAMGI:88321 more ...1600115GO_REF:0000033GO_CentralGO_REF:0000033
Ms4a1Ratplasma membrane located_inISOMS4A1 (Homo sapiens) more ...1624291 RGDGO_REF:0000052
Ms4a1Ratplasma membrane raft located_inISOMS4A1 (Homo sapiens)1624291 PMID:12920111RGDPMID:12920111
Ms4a1Ratplasma membrane raft located_inIEAUniProtKB:P11836 and ensembl:ENSP000003146201600115GO_REF:0000107EnsemblGO_REF:0000107
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Molecular Function

  


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#
Reference Title
Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
3. Integrin alpha(5) interacts with EGFR, is necessary for FcvarepsilonRI signaling and is necessary for allergic inflammation in relation with angiogenesis. Kim Y, etal., Mol Immunol. 2011 Apr;48(8):1035-45. Epub 2011 Feb 23.
4. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
5. Characterization of the mononuclear cell infiltrate in the glomerulus of rats with glomerulonephritis. Radounikli A, etal., Nephrol Dial Transplant. 1995;10(2):185-90.
6. GOA pipeline RGD automated data pipeline
7. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
8. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
9. Comprehensive gene review and curation RGD comprehensive gene curation
10. Current and emerging treatments for chronic lymphocytic leukaemia. Robak T, etal., Drugs. 2009;69(17):2415-49. doi: 10.2165/11319270-000000000-00000.
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PMID:3925015   PMID:7684739   PMID:12477932   PMID:12920111   PMID:14688067   PMID:18474602   PMID:19723499   PMID:20458337   PMID:22664934   PMID:23012479  



Ms4a1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81217,331,274 - 217,351,934 (-)NCBIGRCr8
mRatBN7.21207,906,370 - 207,927,028 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1207,906,374 - 207,918,512 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1216,281,228 - 216,293,400 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01223,345,173 - 223,357,355 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01216,035,633 - 216,047,806 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01227,429,241 - 227,441,492 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1227,429,596 - 227,441,442 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01234,494,128 - 234,506,370 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41213,763,696 - 213,770,756 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11213,921,879 - 213,934,027 (-)NCBI
Celera1205,381,782 - 205,388,842 (-)NCBICelera
Cytogenetic Map1q43NCBI
MS4A1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381160,455,847 - 60,470,752 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1160,455,846 - 60,470,752 (+)EnsemblGRCh38hg38GRCh38
GRCh371160,223,320 - 60,238,225 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361159,979,858 - 59,994,801 (+)NCBINCBI36Build 36hg18NCBI36
Build 341159,979,864 - 59,993,129NCBI
Celera1157,587,550 - 57,602,493 (+)NCBICelera
Cytogenetic Map11q12.2NCBI
HuRef1156,569,727 - 56,584,670 (+)NCBIHuRef
CHM1_11160,089,320 - 60,104,266 (+)NCBICHM1_1
T2T-CHM13v2.01160,406,975 - 60,421,883 (+)NCBIT2T-CHM13v2.0
Ms4a1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391911,227,043 - 11,243,513 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1911,227,039 - 11,243,605 (-)EnsemblGRCm39 Ensembl
GRCm381911,249,679 - 11,266,149 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1911,249,675 - 11,266,241 (-)EnsemblGRCm38mm10GRCm38
MGSCv371911,325,093 - 11,340,641 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361911,316,865 - 11,333,194 (-)NCBIMGSCv36mm8
Celera1911,933,232 - 11,941,389 (-)NCBICelera
Cytogenetic Map19ANCBI
cM Map198.19NCBI
Ms4a1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555115,258,341 - 5,267,113 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049555115,252,934 - 5,263,961 (+)NCBIChiLan1.0ChiLan1.0
MS4A1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2961,597,728 - 61,612,704 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11162,641,996 - 62,656,548 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01155,691,750 - 55,706,697 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11159,134,579 - 59,148,832 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1159,134,617 - 59,149,521 (+)Ensemblpanpan1.1panPan2
MS4A1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12150,722,142 - 50,734,934 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2150,722,041 - 50,733,704 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2150,162,433 - 50,173,865 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02151,895,623 - 51,907,069 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2151,895,348 - 51,908,292 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12150,941,639 - 50,953,065 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02151,040,140 - 51,051,579 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02151,664,248 - 51,675,690 (+)NCBIUU_Cfam_GSD_1.0
Ms4a1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494712,352,445 - 12,358,299 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365812,466,312 - 2,477,530 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365812,466,294 - 2,477,530 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
MS4A1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl211,215,901 - 11,222,914 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1211,216,238 - 11,229,060 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2210,774,975 - 10,787,878 (-)NCBISscrofa10.2Sscrofa10.2susScr3
MS4A1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1113,343,647 - 13,358,639 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl113,345,253 - 13,358,547 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666038110,684,697 - 110,700,399 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0

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Variants in Ms4a1
114 total Variants

Predicted Target Of
Summary Value
Count of predictions:63
Count of miRNA genes:49
Interacting mature miRNAs:58
Transcripts:ENSRNOT00000028433
Prediction methods:Miranda, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


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The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD ID
Symbol
Name
LOD
P Value
Trait
Sub Trait
Chr
Start
Stop
Species
1578778Pur4Proteinuria QTL 43.30.003urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)1150700247252085048Rat
1354646Kidm18Kidney mass QTL 185.7kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)1151162512256448636Rat
1357335Bw39Body weight QTL 393.3body mass (VT:0001259)body weight (CMO:0000012)1197814409242814409Rat
1578780Cm52Cardiac mass QTL 523.30.0001heart mass (VT:0007028)heart wet weight (CMO:0000069)181591954219808434Rat
2302375Bw83Body weight QTL 834.870.0002body mass (VT:0001259)body weight (CMO:0000012)1197697768242697768Rat
1354652Kidm20Kidney mass QTL 204.3kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)1177227632256448636Rat
2293674Bss39Bone structure and strength QTL 397.10.0001femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)1201554356246554356Rat
2302378Insul11Insulin level QTL 113.25blood insulin amount (VT:0001560)serum insulin level (CMO:0000358)1144267353251128347Rat
1354653Despr9Despair related QTL 90.00019locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)1167909849212909849Rat
2293673Bss27Bone structure and strength QTL 2718.630.0001femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)1171629477216629477Rat

1 to 10 of 89 rows
Ms4a2  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21207,906,618 - 207,906,722 (+)MAPPERmRatBN7.2
Rnor_6.01227,429,490 - 227,429,593NCBIRnor6.0
Rnor_5.01234,494,377 - 234,494,480UniSTSRnor5.0
RGSC_v3.41213,763,703 - 213,763,806UniSTSRGSC3.4
Celera1205,381,789 - 205,381,892UniSTS
Cytogenetic Map1q43UniSTS
M62541  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21207,906,701 - 207,906,862 (+)MAPPERmRatBN7.2
Rnor_6.01227,429,573 - 227,429,733NCBIRnor6.0
Rnor_5.01234,494,460 - 234,494,620UniSTSRnor5.0
RGSC_v3.41213,763,786 - 213,763,946UniSTSRGSC3.4
Celera1205,381,872 - 205,382,032UniSTS
Cytogenetic Map1q43UniSTS
RH135092  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21207,906,482 - 207,906,688 (+)MAPPERmRatBN7.2
Rnor_6.01227,429,354 - 227,429,559NCBIRnor6.0
Rnor_5.01234,494,241 - 234,494,446UniSTSRnor5.0
RGSC_v3.41213,763,567 - 213,763,772UniSTSRGSC3.4
Celera1205,381,653 - 205,381,858UniSTS
RH 3.4 Map11506.2UniSTS
Cytogenetic Map1q43UniSTS




alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
9 9 29 47 72 71 41 25 41 5 160 74 28 28 38 30



Ensembl Acc Id: ENSRNOT00000028433   ⟹   ENSRNOP00000028433
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1207,906,374 - 207,918,512 (-)Ensembl
Rnor_6.0 Ensembl1227,429,596 - 227,441,442 (-)Ensembl
RefSeq Acc Id: NM_001399452   ⟹   NP_001386381
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81217,331,274 - 217,343,447 (-)NCBI
mRatBN7.21207,906,370 - 207,918,543 (-)NCBI
RefSeq Acc Id: XM_039079860   ⟹   XP_038935788
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81217,331,274 - 217,351,934 (-)NCBI
mRatBN7.21207,906,370 - 207,927,028 (-)NCBI
Protein RefSeqs NP_001386381 (Get FASTA)   NCBI Sequence Viewer  
  XP_038935788 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDM12866 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000028433
  ENSRNOP00000028433.6
Ensembl Acc Id: ENSRNOP00000028433   ⟸   ENSRNOT00000028433
RefSeq Acc Id: XP_038935788   ⟸   XM_039079860
- Peptide Label: isoform X1
- UniProtKB: D4A4Y3 (UniProtKB/TrEMBL),   A6I085 (UniProtKB/TrEMBL)
RefSeq Acc Id: NP_001386381   ⟸   NM_001399452
- UniProtKB: D4A4Y3 (UniProtKB/TrEMBL),   A6I085 (UniProtKB/TrEMBL)

Name Modeler Protein Id AA Range Protein Structure
AF-D4A4Y3-F1-model_v2 AlphaFold D4A4Y3 1-298 view protein structure


eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen

RGD ID:13690786
Promoter ID:EPDNEW_R1309
Type:multiple initiation site
Name:Ms4a1_1
Description:membrane spanning 4-domains A1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01227,441,415 - 227,441,475EPDNEW


1 to 15 of 15 rows
Database
Acc Id
Source(s)
BioCyc Gene G2FUF-56382 BioCyc
Ensembl Genes ENSRNOG00000020945 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000028433 ENTREZGENE
  ENSRNOT00000028433.8 UniProtKB/TrEMBL
InterPro CD20-like UniProtKB/TrEMBL
  MS4A UniProtKB/TrEMBL
NCBI Gene 309217 ENTREZGENE
PANTHER PTHR23320 UniProtKB/TrEMBL
  PTHR23320:SF79 UniProtKB/TrEMBL
Pfam CD20 UniProtKB/TrEMBL
PharmGKB MS4A1 RGD
PhenoGen Ms4a1 PhenoGen
RatGTEx ENSRNOG00000020945 RatGTEx
UniProt A6I085 ENTREZGENE, UniProtKB/TrEMBL
  D4A4Y3 ENTREZGENE, UniProtKB/TrEMBL
1 to 15 of 15 rows


Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-01-27 Ms4a1  membrane spanning 4-domains A1  Ms4a1  membrane-spanning 4-domains, subfamily A, member 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Ms4a1  membrane-spanning 4-domains, subfamily A, member 1   Ms4a1_predicted  membrane-spanning 4-domains, subfamily A, member 1 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Ms4a1_predicted  membrane-spanning 4-domains, subfamily A, member 1 (predicted)      Symbol and Name status set to approved 70820 APPROVED