Ms4a6d (membrane-spanning 4-domains, subfamily A, member 6D) - Rat Genome Database

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Gene: Ms4a6d (membrane-spanning 4-domains, subfamily A, member 6D) Mus musculus
Analyze
No known orthologs.
Symbol: Ms4a6d
Name: membrane-spanning 4-domains, subfamily A, member 6D
RGD ID: 1615089
MGI Page MGI
Description: Predicted to be involved in cell surface receptor signaling pathway. Predicted to be located in membrane. Predicted to be active in plasma membrane and trans-Golgi network. Orthologous to several human genes including MS4A6A (membrane spanning 4-domains A6A).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: 1110058E16Rik; AI447446; CD20 antigen-like 8; membrane-spanning 4-domains subfamily A member 6D; membrane-spanning 4-domains, subfamily A, member 11; Ms4a; Ms4a11
RGD Orthologs
Alliance Orthologs
More Info homologs ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391911,563,970 - 11,582,150 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1911,563,968 - 11,582,213 (-)EnsemblGRCm39 Ensembl
GRCm381911,586,606 - 11,604,804 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1911,586,604 - 11,604,849 (-)EnsemblGRCm38mm10GRCm38
MGSCv371911,661,096 - 11,679,294 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361911,653,652 - 11,671,831 (-)NCBIMGSCv36mm8
Celera1912,263,506 - 12,276,683 (-)NCBICelera
Cytogenetic Map19ANCBI
cM Map198.45NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
References

References - curated
# Reference Title Reference Citation
1. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:10349636   PMID:10922068   PMID:11042159   PMID:11076861   PMID:11217851   PMID:11245982   PMID:11401424   PMID:12466851   PMID:12477932   PMID:14610273   PMID:15489334   PMID:16141072  
PMID:16141073   PMID:20562862   PMID:21308776   PMID:21873635   PMID:26272612   PMID:30662948   PMID:37429063   PMID:38493579  


Genomics

Variants

.
Variants in Ms4a6d
753 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:319
Count of miRNA genes:234
Interacting mature miRNAs:251
Transcripts:ENSMUST00000025582, ENSMUST00000125291, ENSMUST00000135351, ENSMUST00000155669
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

Markers in Region
AI447446  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381911,586,737 - 11,586,824UniSTSGRCm38
MGSCv371911,661,227 - 11,661,314UniSTSGRCm37
Celera1912,263,637 - 12,263,724UniSTS
Cytogenetic Map19AUniSTS
Whitehead/MRC_RH19127.1UniSTS
AI009669  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381911,601,929 - 11,603,242UniSTSGRCm38
MGSCv371911,676,419 - 11,677,732UniSTSGRCm37
Celera1912,273,808 - 12,275,121UniSTS
Cytogenetic Map19AUniSTS


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSMUST00000025582   ⟹   ENSMUSP00000025582
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1911,563,968 - 11,582,213 (-)Ensembl
GRCm38.p6 Ensembl1911,586,604 - 11,604,849 (-)Ensembl
Ensembl Acc Id: ENSMUST00000125291   ⟹   ENSMUSP00000115142
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1911,564,351 - 11,570,519 (-)Ensembl
GRCm38.p6 Ensembl1911,586,987 - 11,593,155 (-)Ensembl
Ensembl Acc Id: ENSMUST00000135351
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1911,565,328 - 11,570,379 (-)Ensembl
GRCm38.p6 Ensembl1911,587,964 - 11,593,015 (-)Ensembl
Ensembl Acc Id: ENSMUST00000155669
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1911,564,344 - 11,570,737 (-)Ensembl
GRCm38.p6 Ensembl1911,586,980 - 11,593,373 (-)Ensembl
RefSeq Acc Id: NM_026835   ⟹   NP_081111
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391911,563,970 - 11,582,150 (-)NCBI
GRCm381911,586,606 - 11,604,804 (-)ENTREZGENE
MGSCv371911,661,096 - 11,679,294 (-)RGD
Celera1912,263,506 - 12,276,683 (-)RGD
cM Map19 ENTREZGENE
Sequence:
RefSeq Acc Id: NP_081111   ⟸   NM_026835
- UniProtKB: Q9EQY7 (UniProtKB/Swiss-Prot),   Q9D0X1 (UniProtKB/Swiss-Prot),   Q99N07 (UniProtKB/Swiss-Prot),   Q2TVW7 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSMUSP00000115142   ⟸   ENSMUST00000125291
Ensembl Acc Id: ENSMUSP00000025582   ⟸   ENSMUST00000025582

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q99N07-F1-model_v2 AlphaFold Q99N07 1-247 view protein structure

Promoters
RGD ID:13678984
Promoter ID:EPDNEW_M23641
Type:initiation region
Name:Ms4a6d_1
Description:Mus musculus membrane-spanning 4-domains, subfamily A, member6D , 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
GRCm381911,604,758 - 11,604,818EPDNEW
RGD ID:6830228
Promoter ID:MM_KWN:26445
Type:Non-CpG
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:BoneMarrow_0Hour,   BoneMarrow_2Hour,   BoneMarrow_4Hour
Transcripts:OTTMUST00000084015
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv361911,678,879 - 11,679,379 (-)MPROMDB

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:1916024 AgrOrtholog
Ensembl Genes ENSMUSG00000024679 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSMUST00000025582 ENTREZGENE
  ENSMUST00000025582.11 UniProtKB/TrEMBL
  ENSMUST00000125291.3 UniProtKB/TrEMBL
InterPro CD20-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  MS4A UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:68774 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGD MGI:1916024 ENTREZGENE
NCBI Gene 68774 ENTREZGENE
PANTHER MEMBRANE-SPANNING 4-DOMAINS SUBFAMILY A MEMBER 6A UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR23320 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam CD20 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Ms4a6d PhenoGen
UniProt F6V7U2_MOUSE UniProtKB/TrEMBL
  M4A6D_MOUSE UniProtKB/Swiss-Prot
  Q2TVW7 ENTREZGENE, UniProtKB/TrEMBL
  Q99N07 ENTREZGENE
  Q9D0X1 ENTREZGENE
  Q9EQY7 ENTREZGENE
UniProt Secondary Q9D0X1 UniProtKB/Swiss-Prot
  Q9EQY7 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-03-09 Ms4a6d  membrane-spanning 4-domains, subfamily A, member 6D  Ms4a11  membrane-spanning 4-domains, subfamily A, member 11  Data merged from RGD:1314054 737654 PROVISIONAL