Human Gene ST7 (uc003vin.3)
  Description: Homo sapiens suppression of tumorigenicity 7 (ST7), transcript variant b, mRNA.
RefSeq Summary (NM_021908): The gene for this product maps to a region on chromosome 7 identified as an autism-susceptibility locus. Mutation screening of the entire coding region in autistic individuals failed to identify phenotype-specific variants, suggesting that coding mutations for this gene are unlikely to be involved in the etiology of autism. The function of this gene product has not been determined. Transcript variants encoding different isoforms of this protein have been described. [provided by RefSeq, Jul 2008].
Transcript (Including UTRs)
   Position: hg19 chr7:116,593,381-116,863,961 Size: 270,581 Total Exon Count: 16 Strand: +
Coding Region
   Position: hg19 chr7:116,593,595-116,863,034 Size: 269,440 Coding Exon Count: 16 

Page IndexSequence and LinksUniProtKB CommentsPrimersGenetic AssociationsMalaCards
CTDGene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein Structure
Other SpeciesGO AnnotationsmRNA DescriptionsOther NamesModel InformationMethods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr7:116,593,381-116,863,961)mRNA (may differ from genome)Protein (585 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
GeneNetworkH-INVHGNCHPRDLynxMalacards
MGIneXtProtOMIMPubMedTreefamUniProtKB
WikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: ST7_HUMAN
DESCRIPTION: RecName: Full=Suppressor of tumorigenicity 7 protein; AltName: Full=Protein FAM4A1; AltName: Full=Protein HELG;
FUNCTION: May act as a tumor suppressor.
SUBCELLULAR LOCATION: Membrane; Multi-pass membrane protein (Potential).
TISSUE SPECIFICITY: Ubiquitously expressed, with highest levels in heart, liver and pancreas.
SIMILARITY: Belongs to the ST7 family.
SEQUENCE CAUTION: Sequence=CAB86869.1; Type=Erroneous initiation; Sequence=EAW83520.1; 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


-  Genetic Association Studies of Complex Diseases and Disorders
  Genetic Association Database (archive): ST7
CDC HuGE Published Literature: ST7

-  MalaCards Disease Associations
  MalaCards Gene Search: ST7
Diseases sorted by gene-association score: mandibular cancer (17), jaw cancer (17)

-  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: 9.29 RPKM in Cells - EBV-transformed lymphocytes
Total median expression: 219.41 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 -112.10214-0.524 Picture PostScript Text
3' UTR -185.78927-0.200 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
IPR007311 - ST7
IPR011990 - TPR-like_helical

Pfam Domains:
PF04184 - ST7 protein
PF13174 - Tetratricopeptide repeat

ModBase Predicted Comparative 3D Structure on Q9NRC1
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 Details    
 Gene Sorter    
 RGD    
 Protein Sequence    
 Alignment    

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


-  Descriptions from all associated GenBank mRNAs
  BC075855 - Homo sapiens suppression of tumorigenicity 7, mRNA (cDNA clone MGC:90277 IMAGE:5562032), complete cds.
AF234883 - Homo sapiens FAM4A1 splice variant b (FAM4A1) mRNA, complete cds.
AF234882 - Homo sapiens FAM4A1 splice variant a (FAM4A1) mRNA, complete cds.
AK292372 - Homo sapiens cDNA FLJ77461 complete cds, highly similar to Homo sapiens suppression of tumorigenicity 7 (ST7), transcript variant a, mRNA.
BC030954 - Homo sapiens suppression of tumorigenicity 7, mRNA (cDNA clone IMAGE:4609129), complete cds.
AK298540 - Homo sapiens cDNA FLJ61330 complete cds, highly similar to Homo sapiens suppression of tumorigenicity 7 (ST7), transcript variant b, mRNA.
KJ901855 - Synthetic construct Homo sapiens clone ccsbBroadEn_11249 ST7 gene, encodes complete protein.
CU689046 - Synthetic construct Homo sapiens gateway clone IMAGE:100022321 5' read ST7 mRNA.
CU687306 - Synthetic construct Homo sapiens gateway clone IMAGE:100022882 5' read ST7 mRNA.
KJ897799 - Synthetic construct Homo sapiens clone ccsbBroadEn_07193 ST7 gene, encodes complete protein.
DQ892647 - Synthetic construct clone IMAGE:100005277; FLH188614.01X; RZPDo839E0373D suppression of tumorigenicity 7 (ST7) gene, encodes complete protein.
DQ895886 - Synthetic construct Homo sapiens clone IMAGE:100010346; FLH188610.01L; RZPDo839E0363D suppression of tumorigenicity 7 (ST7) gene, encodes complete protein.
KJ534947 - Homo sapiens clone ST7_iso-A_fetal-F14 suppression of tumorigenicity 7 isoform A (ST7) mRNA, partial cds, alternatively spliced.
AK297861 - Homo sapiens cDNA FLJ56119 complete cds, highly similar to Mus musculus Suppression of tumorigenicity 7 (St7), mRNA.
AK093212 - Homo sapiens cDNA FLJ35893 fis, clone TESTI2009388, highly similar to Mus musculus fam4a2 splice variant b (Fam4a2) mRNA.
AY009152 - Homo sapiens ST7 form 2 splice variant a (ST7) gene, complete cds.
AY009153 - Homo sapiens ST7 form 2 splice variant b (ST7) gene, complete cds.
AK297510 - Homo sapiens cDNA FLJ56113 complete cds, highly similar to Mus musculus Suppression of tumorigenicity 7 (St7), mRNA.
AJ277291 - Homo sapiens mRNA for HELG protein.
AF415174 - Homo sapiens suppressor of tumorgenicity 7 isoform 5 (ST7) mRNA, partial cds.
CR936656 - Homo sapiens mRNA; cDNA DKFZp762O2113 (from clone DKFZp762O2113).
JD450461 - Sequence 431485 from Patent EP1572962.
JD461554 - Sequence 442578 from Patent EP1572962.
JD488683 - Sequence 469707 from Patent EP1572962.
JD364047 - Sequence 345071 from Patent EP1572962.
AY625690 - Homo sapiens ST7 isoform 3 (ST7) mRNA, ST7-RAY1 allele, partial cds.
AF400044 - Homo sapiens clone IMAGE:1628386 ST7OT3 mRNA, non-coding transcript.
JD360059 - Sequence 341083 from Patent EP1572962.
JD150485 - Sequence 131509 from Patent EP1572962.
JD360893 - Sequence 341917 from Patent EP1572962.
JD555943 - Sequence 536967 from Patent EP1572962.
JD528511 - Sequence 509535 from Patent EP1572962.
JD095977 - Sequence 77001 from Patent EP1572962.
JD394243 - Sequence 375267 from Patent EP1572962.
JD564906 - Sequence 545930 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: A4D0V2, FAM4A1, HELG, NM_021908, NP_068708, Q5CZ72, Q7LE31, Q7LE32, Q8NA32, Q8NEJ8, Q8TDI9, Q9BWX3, Q9BWX4, Q9NRC1, Q9NRC2, Q9NXZ7, RAY1, ST7_HUMAN
UCSC ID: uc003vin.3
RefSeq Accession: NM_021908
Protein: Q9NRC1 (aka ST7_HUMAN)
CCDS: CCDS5770.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_021908.2
exon count: 16CDS single in 3' UTR: no RNA size: 2970
ORF size: 1758CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 3560.00frame shift in genome: no % Coverage: 97.61
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.