Human Gene TMEM171 (ENST00000287773.5_4) from GENCODE V47lift37
  Description: transmembrane protein 171, transcript variant 2 (from RefSeq NM_001161342.3)
Gencode Transcript: ENST00000287773.5_4
Gencode Gene: ENSG00000157111.13_11
Transcript (Including UTRs)
   Position: hg19 chr5:72,416,396-72,427,636 Size: 11,241 Total Exon Count: 4 Strand: +
Coding Region
   Position: hg19 chr5:72,419,201-72,427,557 Size: 8,357 Coding Exon Count: 3 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
Other NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr5:72,416,396-72,427,636)mRNA (may differ from genome)Protein (323 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
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HGNCMGIPubMedUniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: TM171_HUMAN
DESCRIPTION: RecName: Full=Transmembrane protein 171;
SUBCELLULAR LOCATION: Membrane; Multi-pass membrane protein (Potential).
SEQUENCE CAUTION: Sequence=BAB89327.1; Type=Erroneous gene model prediction;

-  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           more ... click here to view the complete list

+  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: 19.48 RPKM in Colon - Transverse
Total median expression: 87.75 RPKM



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

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -91.10196-0.465 Picture PostScript Text
3' UTR -8.0079-0.101 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
  Pfam Domains:
PF15471 - Transmembrane protein family 171

SCOP Domains:
81321 - Family A G protein-coupled receptor-like

ModBase Predicted Comparative 3D Structure on Q8WVE6
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 DetailsGene Details    
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005515 protein binding

Cellular Component:
GO:0016020 membrane
GO:0016021 integral component of membrane


-  Descriptions from all associated GenBank mRNAs
  BC018083 - Homo sapiens transmembrane protein 171, mRNA (cDNA clone MGC:26940 IMAGE:4797244), complete cds.
BC035310 - Homo sapiens transmembrane protein 171, mRNA (cDNA clone MGC:21769 IMAGE:4746772), complete cds.
JD045649 - Sequence 26673 from Patent EP1572962.
CU676166 - Synthetic construct Homo sapiens gateway clone IMAGE:100020853 5' read TMEM171 mRNA.
CU690064 - Synthetic construct Homo sapiens gateway clone IMAGE:100020685 5' read TMEM171 mRNA.
HQ448012 - Synthetic construct Homo sapiens clone IMAGE:100071382; CCSB010331_01 transmembrane protein 171 (TMEM171) gene, encodes complete protein.
KJ900159 - Synthetic construct Homo sapiens clone ccsbBroadEn_09553 TMEM171 gene, encodes complete protein.
KJ900160 - Synthetic construct Homo sapiens clone ccsbBroadEn_09554 TMEM171 gene, encodes complete protein.

-  Other Names for This Gene
  Alternate Gene Symbols: ENST00000287773.1, ENST00000287773.2, ENST00000287773.3, ENST00000287773.4, NM_001161342, Q8N0S1, Q8TDT7, Q8WVE6, TM171_HUMAN, uc317knx.1
UCSC ID: ENST00000287773.5_4
RefSeq Accession: NM_001161342.3
Protein: Q8WVE6 (aka TM171_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.