Human Gene MS4A15 (uc009ynf.1)
  Description: Homo sapiens membrane-spanning 4-domains, subfamily A, member 15 (MS4A15), transcript variant 1, mRNA.
Transcript (Including UTRs)
   Position: hg19 chr11:60,524,340-60,544,204 Size: 19,865 Total Exon Count: 7 Strand: +
Coding Region
   Position: hg19 chr11:60,531,207-60,543,188 Size: 11,982 Coding Exon Count: 6 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsOther NamesModel InformationMethods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr11:60,524,340-60,544,204)mRNA (may differ from genome)Protein (240 aa)
Gene SorterGenome BrowserOther Species FASTATable SchemaAlphaFoldBioGPS
EnsemblEntrez GeneExonPrimerGeneCardsGeneNetworkH-INV
HGNCHPRDLynxMGIneXtProtPubMed
UniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: M4A15_HUMAN
DESCRIPTION: RecName: Full=Membrane-spanning 4-domains subfamily A member 15;
FUNCTION: May be involved in signal transduction as a component of a multimeric receptor complex (By similarity).
SUBCELLULAR LOCATION: Membrane; Multi-pass membrane protein (Potential).
SIMILARITY: Belongs to the MS4A family.

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 16.56 RPKM in Lung
Total median expression: 17.74 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -68.80220-0.313 Picture PostScript Text
3' UTR -396.701016-0.390 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR007237 - CD20-like

Pfam Domains:
PF04103 - CD20-like family

ModBase Predicted Comparative 3D Structure on Q8N5U1
FrontTopSide
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
      
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Cellular Component:
GO:0016020 membrane
GO:0016021 integral component of membrane


-  Descriptions from all associated GenBank mRNAs
  AK300233 - Homo sapiens cDNA FLJ57433 complete cds.
BC031610 - Homo sapiens membrane-spanning 4-domains, subfamily A, member 15, mRNA (cDNA clone MGC:35295 IMAGE:5176452), complete cds.
AK091846 - Homo sapiens cDNA FLJ34527 fis, clone HLUNG2007931.
AX747218 - Sequence 743 from Patent EP1308459.
AY584608 - Homo sapiens MS4A15 (MS4A15) mRNA, complete cds, alternatively spliced.
AY584609 - Homo sapiens MS4A15 (MS4A15) mRNA, complete cds, alternatively spliced.
KJ895844 - Synthetic construct Homo sapiens clone ccsbBroadEn_05238 MS4A15 gene, encodes complete protein.
JF432886 - Synthetic construct Homo sapiens clone IMAGE:100074210 membrane-spanning 4-domains, subfamily A, member 15 (MS4A15) gene, encodes complete protein.
JD496987 - Sequence 478011 from Patent EP1572962.
JD496765 - Sequence 477789 from Patent EP1572962.
JD300021 - Sequence 281045 from Patent EP1572962.
JD297708 - Sequence 278732 from Patent EP1572962.
JD525420 - Sequence 506444 from Patent EP1572962.
JD131443 - Sequence 112467 from Patent EP1572962.
JD475642 - Sequence 456666 from Patent EP1572962.
JD246328 - Sequence 227352 from Patent EP1572962.
JD521957 - Sequence 502981 from Patent EP1572962.
JD295830 - Sequence 276854 from Patent EP1572962.
JD378492 - Sequence 359516 from Patent EP1572962.
JD111105 - Sequence 92129 from Patent EP1572962.
JD200966 - Sequence 181990 from Patent EP1572962.
JD390288 - Sequence 371312 from Patent EP1572962.
JD376644 - Sequence 357668 from Patent EP1572962.
JD525314 - Sequence 506338 from Patent EP1572962.
JD415297 - Sequence 396321 from Patent EP1572962.
JD251959 - Sequence 232983 from Patent EP1572962.
JD121193 - Sequence 102217 from Patent EP1572962.
JD285729 - Sequence 266753 from Patent EP1572962.
JD239437 - Sequence 220461 from Patent EP1572962.
JD098466 - Sequence 79490 from Patent EP1572962.
JD172683 - Sequence 153707 from Patent EP1572962.
JD071229 - Sequence 52253 from Patent EP1572962.
JD513330 - Sequence 494354 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: M4A15_HUMAN, NM_001098835, NP_689930, Q8N5U1
UCSC ID: uc009ynf.1
RefSeq Accession: NM_001098835
Protein: Q8N5U1 (aka M4A15_HUMAN)
CCDS: CCDS44617.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_001098835.1
exon count: 7CDS single in 3' UTR: no RNA size: 1980
ORF size: 723CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 1646.00frame shift in genome: no % Coverage: 98.94
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: no # AT/AC introns 0
selenocysteine: no end bleed into intron: 0# strange splices: 0
Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.