Human Gene TM9SF2 (ENST00000376387.5_5) from GENCODE V47lift37
  Description: transmembrane 9 superfamily member 2 (from RefSeq NM_004800.3)
Gencode Transcript: ENST00000376387.5_5
Gencode Gene: ENSG00000125304.10_10
Transcript (Including UTRs)
   Position: hg19 chr13:100,153,726-100,216,302 Size: 62,577 Total Exon Count: 17 Strand: +
Coding Region
   Position: hg19 chr13:100,153,861-100,215,012 Size: 61,152 Coding Exon Count: 17 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr13:100,153,726-100,216,302)mRNA (may differ from genome)Protein (663 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMGIOMIMPubMedUniProtKBWikipedia
BioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: TM9S2_HUMAN
DESCRIPTION: RecName: Full=Transmembrane 9 superfamily member 2; AltName: Full=p76; Flags: Precursor;
FUNCTION: In the intracellular compartments, may function as a channel or small molecule transporter.
SUBCELLULAR LOCATION: Endosome membrane; Multi-pass membrane protein (Probable).
TISSUE SPECIFICITY: Ubiquitously expressed. Especially abundant in pancreas, highly expressed in kidney, lower levels in heart, brain, skeletal muscle and placenta. Lowest expression in lung and liver.
SIMILARITY: Belongs to the nonaspanin (TM9SF) 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: 53.61 RPKM in Minor Salivary Gland
Total median expression: 1580.27 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 -28.50135-0.211 Picture PostScript Text
3' UTR -273.401290-0.212 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
IPR004240 - EMP70

Pfam Domains:
PF02990 - Endomembrane protein 70

SCOP Domains:
103473 - MFS general substrate transporter

ModBase Predicted Comparative 3D Structure on Q99805
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 orthologGenome BrowserNo ortholog
Gene DetailsGene Details Gene DetailsGene Details 
Gene SorterGene Sorter Gene SorterGene Sorter 
 RGDEnsembl WormBase 
    Protein Sequence 
    Alignment 

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Cellular Component:
GO:0005768 endosome
GO:0005887 integral component of plasma membrane
GO:0010008 endosome membrane
GO:0016020 membrane
GO:0016021 integral component of membrane
GO:0070062 extracellular exosome


-  Descriptions from all associated GenBank mRNAs
  BC110656 - Homo sapiens transmembrane 9 superfamily member 2, mRNA (cDNA clone MGC:117391 IMAGE:3855486), complete cds.
GQ891421 - Homo sapiens clone HEL-S-142 epididymis secretory sperm binding protein mRNA, complete cds.
AK315210 - Homo sapiens cDNA, FLJ96202.
AK290514 - Homo sapiens cDNA FLJ78121 complete cds, highly similar to Homo sapiens transmembrane 9 superfamily member 2 (TM9SF2), mRNA.
U81006 - Human p76 mRNA, complete cds.
AK225800 - Homo sapiens mRNA for transmembrane 9 superfamily member 2 variant, clone: FCC130G05.
BC130293 - Homo sapiens transmembrane 9 superfamily member 2, mRNA (cDNA clone MGC:163165 IMAGE:40146324), complete cds.
JD365754 - Sequence 346778 from Patent EP1572962.
AK093507 - Homo sapiens cDNA FLJ36188 fis, clone TESTI2027179, highly similar to Transmembrane 9 superfamily protein member 2 precursor.
AX748174 - Sequence 1699 from Patent EP1308459.
AK129798 - Homo sapiens cDNA FLJ26287 fis, clone DMC06904, highly similar to Transmembrane 9 superfamily protein member 2 precursor.
L13803 - Homo sapiens (clone 05) liver expressed protein mRNA fragment.
JD509336 - Sequence 490360 from Patent EP1572962.
JD316129 - Sequence 297153 from Patent EP1572962.
JD502448 - Sequence 483472 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: A8K399, ENST00000376387.1, ENST00000376387.2, ENST00000376387.3, ENST00000376387.4, NM_004800, Q2TAY5, Q99805, TM9S2_HUMAN, uc318mxi.1, uc318mxi.2
UCSC ID: ENST00000376387.5_5
RefSeq Accession: NM_004800.3
Protein: Q99805 (aka TM9S2_HUMAN or T9S2_HUMAN)

-  Gene Model Information
  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.