Ms4a3 (membrane-spanning 4-domains, subfamily A, member 3) - Rat Genome Database

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Pathways
Gene: Ms4a3 (membrane-spanning 4-domains, subfamily A, member 3) Mus musculus
Analyze
Symbol: Ms4a3
Name: membrane-spanning 4-domains, subfamily A, member 3
RGD ID: 1321598
MGI Page MGI
Description: Located in cytoplasm. Is expressed in several structures, including alimentary system; extraembryonic component; hemolymphoid system; male reproductive gland or organ; and nervous system. Orthologous to human MS4A3 (membrane spanning 4-domains A3).
Type: protein-coding
RefSeq Status: REVIEWED
Previously known as: haematopoietic cell-specific transmembrane-4; hematopoietic-specific transmembrane protein 4; HTm4; membrane-spanning 4-domains subfamily A member 3; mHTm4
RGD Orthologs
Human
Rat
Bonobo
Dog
Squirrel
Green Monkey
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391911,606,863 - 11,618,215 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1911,606,860 - 11,618,215 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm381911,629,499 - 11,640,851 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1911,629,496 - 11,640,851 (-)Ensemblmm10GRCm38
MGSCv371911,703,987 - 11,715,324 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361911,696,542 - 11,707,879 (-)NCBIMGSCv36mm8
Celera1912,301,544 - 12,312,843 (-)NCBICelera
Cytogenetic Map19ANCBI
cM Map198.47NCBI
JBrowse:




Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
cytoplasm  (IDA)
membrane  (IEA,TAS)
plasma membrane  (IBA)

Molecular Function

Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
References

References - curated
# Reference Title Reference Citation
1. MGDs mouse GO annotations MGD data from the GO Consortium
2. Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs. Okazaki Y, etal., Nature. 2002 Dec 5;420(6915):563-73.
3. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:10349636   PMID:11042159   PMID:11076861   PMID:11217851   PMID:11401424   PMID:11488981   PMID:12477932   PMID:15704002   PMID:16141072   PMID:16141073   PMID:19818099   PMID:21267068  
PMID:21873635   PMID:24194600   PMID:27626380   PMID:29274779   PMID:31491389   PMID:32341550   PMID:32976798   PMID:34001904   PMID:34780648   PMID:34788598   PMID:35245124   PMID:35705045  
PMID:35907260   PMID:36323311   PMID:36787740   PMID:36928411   PMID:37254842   PMID:37256130   PMID:37316669   PMID:37676943   PMID:37922341   PMID:38057662   PMID:38167979   PMID:38309272  
PMID:38326613   PMID:38355793   PMID:38749446   PMID:38762882   PMID:38821051   PMID:39082371   PMID:39093958   PMID:39236155   PMID:39317200   PMID:39485859   PMID:39532096   PMID:39541348  
PMID:39819562   PMID:39841599   PMID:39862865   PMID:40015275   PMID:40146036  


Genomics

Comparative Map Data
Ms4a3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391911,606,863 - 11,618,215 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1911,606,860 - 11,618,215 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm381911,629,499 - 11,640,851 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1911,629,496 - 11,640,851 (-)Ensemblmm10GRCm38
MGSCv371911,703,987 - 11,715,324 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361911,696,542 - 11,707,879 (-)NCBIMGSCv36mm8
Celera1912,301,544 - 12,312,843 (-)NCBICelera
Cytogenetic Map19ANCBI
cM Map198.47NCBI
MS4A3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381160,056,665 - 60,071,115 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1160,056,587 - 60,071,115 (+)Ensemblhg38GRCh38
GRCh371159,824,138 - 59,838,588 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361159,580,677 - 59,595,164 (+)NCBIBuild 36Build 36hg18NCBI36
Build 341159,580,706 - 59,595,177NCBI
Celera1157,188,482 - 57,202,973 (+)NCBICelera
Cytogenetic Map11q12.1NCBI
HuRef1156,171,262 - 56,185,749 (+)NCBIHuRef
CHM1_11159,690,098 - 59,704,585 (+)NCBICHM1_1
T2T-CHM13v2.01160,007,952 - 60,022,403 (+)NCBIT2T-CHM13v2.0
Ms4a3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81217,887,105 - 217,904,921 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1217,887,105 - 217,904,907 (-)EnsemblGRCr8
mRatBN7.21208,462,300 - 208,480,129 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1208,462,301 - 208,480,101 (-)EnsemblmRatBN7.2
Rnor_6.01227,979,307 - 227,994,210 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1227,979,481 - 227,992,623 (-)Ensemblrn6Rnor6.0
Rnor_5.01235,041,728 - 235,059,555 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41214,374,827 - 214,391,647 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1205,938,244 - 205,956,390 (-)NCBICelera
RGSC_v3.11214,533,256 - 214,608,521 (-)NCBI
Cytogenetic Map1q43NCBI
MS4A3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2961,192,671 - 61,207,155 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11162,236,369 - 62,250,804 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01155,286,806 - 55,301,236 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11158,733,492 - 58,747,968 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1158,733,527 - 58,747,968 (+)EnsemblpanPan2panpan1.1
LOC102155828
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12150,480,386 - 50,495,379 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2149,921,695 - 49,936,218 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.02151,653,779 - 51,668,289 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
UMICH_Zoey_3.12150,701,263 - 50,715,784 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02150,798,695 - 50,813,213 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02151,423,486 - 51,438,014 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Ms4a3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494712,644,677 - 12,656,827 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365812,759,690 - 2,769,093 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049365812,759,711 - 2,769,162 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
MS4A3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1 Ensembl113,675,031 - 13,685,000 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM

Variants

.
Variants in Ms4a3
446 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:58
Count of miRNA genes:58
Interacting mature miRNAs:58
Transcripts:ENSMUST00000112984
Prediction methods:Miranda, Rnahybrid
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.


QTLs in Region (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
4142302Nstr1_mnerve sheath tumor resistance QTL 1 (mouse)Not determined19122371338Mouse
1301271Datd_mdopamine transporter density (mouse)Not determined19132340234Mouse
1300923Bits4_mbitterness sensitivity 4 (mouse)Not determined19332321637323348Mouse
11039522Tbbr4_mTrypanosoma brucei brucei response 4 (mouse)19531332639313470Mouse
4142161Drinksac2_mdrink saccharin 2 (mouse)Not determined120695286Mouse
1357819Tgct2_mtesticular germ cell tumor 2 (mouse)Not determined19332855120539663Mouse
1302019Pgia23_mproteoglycan induced arthritis 23 (mouse)Not determined19978745343787602Mouse
38455997Cdtm2_mCD62L+ CD8 TM cells 2 (mouse)19997736419977364Mouse
4142406Pbctlp1_mperipheral blood cytotoxic T lymphocyte percentage 1 (mouse)Not determined132875174Mouse
1300776Lfp3_mlong free running period 3 (mouse)Not determined19120328703Mouse
1300904Chab5_mcholesterol absorption 5 (mouse)Not determined19165376435653927Mouse
26884385Skwq14_mskull length QTL 14, 16 week (mouse)19325000035877400Mouse
1301800Faq10_mfluctuating asymmetry QTL 10 (mouse)Not determined19332321637323348Mouse
1300591Pas3_mpulmonary adenoma susceptibility 3 (mouse)Not determined19332321637323348Mouse
1302126Skull26_mskull morphology 26 (mouse)Not determined19332321637323348Mouse
1301228Iba4_minduction of brown adipocytes 4 (mouse)Not determined19930571543305821Mouse


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSMUST00000112984   ⟹   ENSMUSP00000108608
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1911,606,863 - 11,618,198 (-)Ensembl
GRCm38.p6 Ensembl1911,629,499 - 11,640,834 (-)Ensembl
Ensembl Acc Id: ENSMUST00000186023   ⟹   ENSMUSP00000140508
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1911,606,860 - 11,618,169 (-)Ensembl
GRCm38.p6 Ensembl1911,629,496 - 11,640,805 (-)Ensembl
Ensembl Acc Id: ENSMUST00000190642
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1911,609,266 - 11,618,215 (-)Ensembl
GRCm38.p6 Ensembl1911,631,902 - 11,640,851 (-)Ensembl
RefSeq Acc Id: NM_133246   ⟹   NP_573509
RefSeq Status: REVIEWED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391911,606,863 - 11,618,215 (-)NCBI
GRCm381911,629,499 - 11,640,851 (-)NCBI
MGSCv371911,703,987 - 11,715,324 (-)RGD
Celera1912,301,546 - 12,312,860 (-)NCBI
cM Map19 ENTREZGENE
Sequence:
RefSeq Acc Id: NP_573509   ⟸   NM_133246
- UniProtKB: Q99MX6 (UniProtKB/Swiss-Prot),   Q920C4 (UniProtKB/Swiss-Prot),   Q53ZU3 (UniProtKB/TrEMBL),   Q810H7 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSMUSP00000140508   ⟸   ENSMUST00000186023
Ensembl Acc Id: ENSMUSP00000108608   ⟸   ENSMUST00000112984

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q920C4-F1-model_v2 AlphaFold Q920C4 1-213 view protein structure

Promoters
RGD ID:13678988
Promoter ID:EPDNEW_M23643
Type:initiation region
Name:Ms4a3_1
Description:Mus musculus membrane-spanning 4-domains, subfamily A, member3 , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm381911,640,851 - 11,640,911EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:2158468 AgrOrtholog
Ensembl Genes ENSMUSG00000024681 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000112984.4 UniProtKB/Swiss-Prot
  ENSMUST00000186023 ENTREZGENE
  ENSMUST00000186023.7 UniProtKB/Swiss-Prot
InterPro CD20-like UniProtKB/Swiss-Prot
  MS4A UniProtKB/Swiss-Prot
KEGG Report mmu:170813 UniProtKB/Swiss-Prot
MGD MGI:2158468 ENTREZGENE
NCBI Gene 170813 ENTREZGENE
PANTHER PTHR23320 UniProtKB/Swiss-Prot
  PTHR23320:SF74 UniProtKB/Swiss-Prot
Pfam CD20 UniProtKB/Swiss-Prot
PhenoGen Ms4a3 PhenoGen
UniProt MS4A3_MOUSE UniProtKB/Swiss-Prot
  Q3TYT4_MOUSE UniProtKB/TrEMBL
  Q53ZU3 ENTREZGENE, UniProtKB/TrEMBL
  Q810H7 ENTREZGENE, UniProtKB/TrEMBL
  Q920C4 ENTREZGENE
  Q99MX6 ENTREZGENE
UniProt Secondary Q99MX6 UniProtKB/Swiss-Prot