Human Gene TMEM42 (ENST00000302392.5) from GENCODE V44
  Description: Homo sapiens transmembrane protein 42 (TMEM42), mRNA. (from RefSeq NM_144638)
Gencode Transcript: ENST00000302392.5
Gencode Gene: ENSG00000169964.8
Transcript (Including UTRs)
   Position: hg38 chr3:44,861,912-44,865,664 Size: 3,753 Total Exon Count: 3 Strand: +
Coding Region
   Position: hg38 chr3:44,861,925-44,865,180 Size: 3,256 Coding Exon Count: 3 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
Other NamesMethods
Data last updated at UCSC: 2023-08-18 00:09:47

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr3:44,861,912-44,865,664)mRNA (may differ from genome)Protein (159 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGencodeGeneCards
HGNCHPRDLynxMGIneXtProtPubMed
UniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: TMM42_HUMAN
DESCRIPTION: RecName: Full=Transmembrane protein 42;
SUBCELLULAR LOCATION: Membrane; Multi-pass membrane protein (Potential).

-  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

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 33.35 RPKM in Testis
Total median expression: 702.19 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
3' UTR -153.90484-0.318 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
  ModBase Predicted Comparative 3D Structure on Q69YG0
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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
Genome BrowserGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
MGIRGD    
Protein SequenceProtein Sequence    
AlignmentAlignment    

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


-  Descriptions from all associated GenBank mRNAs
  HZ408644 - JP 2015528002-A/1241: CHIRAL CONTROL.
HZ459530 - WO 2015182781-A/233: Kit or device and method for detecting pancreatic cancer.
HZ460191 - WO 2015190542-A/197: Kit or device and method for detecting biliary tract cancer.
HZ461146 - WO 2015190584-A/643: Kit or device and method for detecting prostate cancer.
HZ461403 - WO 2015190586-A/216: Kit and method for detecting colon cancer.
HZ462157 - WO 2015190591-A/312: Kit and method for detecting breast cancer.
HZ463250 - WO 2015194535-A/344: Kit and method for detecting stomach cancer.
HZ463901 - WO 2015194610-A/337: Kit and method for detecting lung cancer.
HZ464579 - WO 2015194615-A/397: Kit or device and method for detecting hepatic cancer.
HZ465274 - WO 2015194627-A/327: Kit and method for detecting esophageal cancer.
LG051978 - KR 1020150036642-A/1244: CHIRAL CONTROL.
LY480970 - KR 1020170010856-A/233: PANCREATIC CANCER DETECTION KIT, DEVICE, AND DETECTION METHOD.
LY495818 - KR 1020170015509-A/197: DETECTION KIT OR DEVICE AND DETECTION METHOD FOR BILIARY TRACT CANCER.
LY496457 - KR 1020170018406-A/327: ESOPHAGEAL CANCER DETECTION KIT OR DEVICE, AND DETECTION METHOD.
LY497046 - KR 1020170016485-A/216: COLORECTAL CANCER DETECTION KIT OR DEVICE, AND DETECTION METHOD.
LY497802 - KR 1020170018409-A/337: KIT OR DEVICE FOR DETECTING LUNG CANCER, AND LUNG CANCER DETECTION METHOD.
LY498480 - KR 1020170018411-A/397: LIVER CANCER DETECTION KIT OR DEVICE, AND DETECTION METHOD.
LY499160 - KR 1020170018412-A/312: BREAST CANCER DETECTION KIT OR DEVICE, AND METHOD FOR DETECTING BREAST CANCER.
LY500063 - KR 1020170019425-A/344: STOMACH CANCER DETECTION KIT OR DEVICE, AND DETECTION METHOD.
LY501019 - KR 1020170016490-A/643: PROSTATE CANCER DETECTION KIT OR DEVICE, AND DETECTION METHOD.
MS868983 - Sequence 197 from Patent EP3156500.
MS869938 - Sequence 643 from Patent EP3156483.
MS880475 - Sequence 312 from Patent EP3156498.
MS884233 - Sequence 216 from Patent EP3156499.
MS885182 - Sequence 344 from Patent EP3156503.
MS994465 - Sequence 327 from Patent EP3159406.
MS996868 - Sequence 337 from Patent EP3159416.
AL834253 - Homo sapiens mRNA; cDNA DKFZp434J174 (from clone DKFZp434J174).
BC019851 - Homo sapiens transmembrane protein 42, mRNA (cDNA clone MGC:29956 IMAGE:5114515), complete cds.
KJ895483 - Synthetic construct Homo sapiens clone ccsbBroadEn_04877 TMEM42 gene, encodes complete protein.
JD318963 - Sequence 299987 from Patent EP1572962.
JD045298 - Sequence 26322 from Patent EP1572962.
JD205140 - Sequence 186164 from Patent EP1572962.
JD079011 - Sequence 60035 from Patent EP1572962.
JD501537 - Sequence 482561 from Patent EP1572962.
JD239051 - Sequence 220075 from Patent EP1572962.
JD051755 - Sequence 32779 from Patent EP1572962.
JD375866 - Sequence 356890 from Patent EP1572962.
JD163964 - Sequence 144988 from Patent EP1572962.
JD294982 - Sequence 276006 from Patent EP1572962.
JD244999 - Sequence 226023 from Patent EP1572962.
JD214042 - Sequence 195066 from Patent EP1572962.
JD354668 - Sequence 335692 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: ENST00000302392.1, ENST00000302392.2, ENST00000302392.3, ENST00000302392.4, NM_144638, Q69YG0, Q8WUQ6, TMM42_HUMAN, uc003cnz.1, uc003cnz.2, uc003cnz.3, uc003cnz.4, uc003cnz.5
UCSC ID: ENST00000302392.5
RefSeq Accession: NM_144638
Protein: Q69YG0 (aka TMM42_HUMAN)
CCDS: CCDS2722.1

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