Human Gene TMC4 (uc010erf.3) Description and Page Index
  Description: Homo sapiens transmembrane channel-like 4 (TMC4), transcript variant 1, mRNA.
Transcript (Including UTRs)
   Position: hg19 chr19:54,663,834-54,676,944 Size: 13,111 Total Exon Count: 15 Strand: -
Coding Region
   Position: hg19 chr19:54,664,043-54,676,812 Size: 12,770 Coding Exon Count: 15 

Page IndexSequence and LinksUniProtKB CommentsCTDGene AllelesRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
Other NamesModel InformationMethods
Data last updated: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr19:54,663,834-54,676,944)mRNA (may differ from genome)Protein (712 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
BioGPSCGAPEnsemblEntrez GeneExonPrimerGeneCards
H-INVHGNCHPRDLynxMGIneXtProt
OMIMPubMedStanford SOURCETreefamUniProtKB

-  Comments and Description Text from UniProtKB
  ID: TMC4_HUMAN
DESCRIPTION: RecName: Full=Transmembrane channel-like protein 4;
FUNCTION: May function as ion channels, transporters or modulators of such.
SUBCELLULAR LOCATION: Membrane; Multi-pass membrane protein (Potential).
SIMILARITY: Belongs to the TMC family.

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  Common Gene Haplotype Alleles
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-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 42.84 RPKM in Colon - Transverse
Total median expression: 393.23 RPKM



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

+  Microarray Expression Data
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-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -52.10132-0.395 Picture PostScript Text
3' UTR -54.30209-0.260 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
IPR012496 - TMC

Pfam Domains:
PF07810 - TMC domain

ModBase Predicted Comparative 3D Structure on Q7Z404
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 orthologGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
 RGD    
 Protein Sequence    
 Alignment    

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Biological Process:
GO:0006811 ion transport

Cellular Component:
GO:0016020 membrane
GO:0016021 integral component of membrane
GO:0070062 extracellular exosome


-  Descriptions from all associated GenBank mRNAs
  BC032477 - Homo sapiens transmembrane channel-like 4, mRNA (cDNA clone IMAGE:5215240), complete cds.
AY263166 - Homo sapiens TMC4 protein (TMC4) mRNA, complete cds.
BC025323 - Homo sapiens transmembrane channel-like 4, mRNA (cDNA clone MGC:39329 IMAGE:2959382), complete cds.
AY236492 - Homo sapiens transmembrane channel-like protein 4 (TMC4) mRNA, complete cds.
JD491029 - Sequence 472053 from Patent EP1572962.
HM005517 - Homo sapiens clone HTL-T-204 testicular tissue protein Li 204 mRNA, complete cds.
AK314973 - Homo sapiens cDNA, FLJ95889, highly similar to Homo sapiens transmembrane channel-like 4 (TMC4), mRNA.
KJ903849 - Synthetic construct Homo sapiens clone ccsbBroadEn_13243 TMC4 gene, encodes complete protein.
DQ892181 - Synthetic construct clone IMAGE:100004811; FLH183768.01X; RZPDo839G05142D transmembrane channel-like 4 (TMC4) gene, encodes complete protein.
DQ895377 - Synthetic construct Homo sapiens clone IMAGE:100009837; FLH183765.01L; RZPDo839G05141D transmembrane channel-like 4 (TMC4) gene, encodes complete protein.
AK124406 - Homo sapiens cDNA FLJ42415 fis, clone BLADE2001753.
DQ656026 - Homo sapiens clone Affy08242B01, mRNA sequence.
JD145612 - Sequence 126636 from Patent EP1572962.
JD275873 - Sequence 256897 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: NM_001145303, NP_001138775, Q7Z404, Q7Z5M3, Q8N5E4, Q8TBS7, TMC4_HUMAN
UCSC ID: uc010erf.3
RefSeq Accession: NM_001145303
Protein: Q7Z404 (aka TMC4_HUMAN)
CCDS: CCDS12882.1, CCDS46174.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_001145303.1
exon count: 15CDS single in 3' UTR: no RNA size: 2494
ORF size: 2139CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 3742.00frame shift in genome: no % Coverage: 99.44
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.