Human Gene SMIM4 (uc003dep.2) Description and Page Index
  Description: Homo sapiens small integral membrane protein 4 (SMIM4), mRNA.
Transcript (Including UTRs)
   Position: hg19 chr3:52,570,621-52,574,586 Size: 3,966 Total Exon Count: 2 Strand: +
Coding Region
   Position: hg19 chr3:52,570,772-52,574,501 Size: 3,730 Coding Exon Count: 2 

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 (chr3:52,570,621-52,574,586)mRNA (may differ from genome)Protein (70 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneTable SchemaBioGPS
CGAPEnsemblEntrez GeneExonPrimerGeneCardsGeneNetwork
HGNCHPRDLynxMGIneXtProtPubMed
Stanford SOURCEUniProtKB

-  Comments and Description Text from UniProtKB
  ID: SMIM4_HUMAN
DESCRIPTION: RecName: Full=Small integral membrane protein 4;
SUBCELLULAR LOCATION: Membrane; Single-pass membrane protein (Potential).
SIMILARITY: Belongs to the SMIM4 family.
SEQUENCE CAUTION: Sequence=AAH17996.1; Type=Erroneous initiation; Note=Translation N-terminally shortened;

-  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: 12.60 RPKM in Adrenal Gland
Total median expression: 201.63 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 -55.51151-0.368 Picture PostScript Text
3' UTR -9.3485-0.110 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:
PF15114 - Uncharacterised protein family UPF0640

ModBase Predicted Comparative 3D Structure on Q8WVI0
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 orthologGenome BrowserGenome BrowserNo orthologNo ortholog
Gene Details  Gene Details  
Gene Sorter  Gene Sorter  
  EnsemblFlyBase  
  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
  BC017996 - Homo sapiens similar to CG32736-PA, mRNA (cDNA clone IMAGE:4251653), partial cds.
AK095910 - Homo sapiens cDNA FLJ38591 fis, clone HEART1000151.

-  Other Names for This Gene
  Alternate Gene Symbols: C3orf78, NM_001124767, NP_001118239, Q8WVI0, SMIM4_HUMAN
UCSC ID: uc003dep.2
RefSeq Accession: NM_001124767
Protein: Q8WVI0 (aka SMIM4_HUMAN)
CCDS: CCDS46844.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_001124767.1
exon count: 2CDS single in 3' UTR: no RNA size: 467
ORF size: 213CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 626.00frame shift in genome: no % Coverage: 96.15
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.