Human Gene TSSC4 (ENST00000333256.11_7) from GENCODE V47lift37
  Description: tumor suppressing subtransferable candidate 4, transcript variant 3 (from RefSeq NM_005706.4)
Gencode Transcript: ENST00000333256.11_7
Gencode Gene: ENSG00000184281.15_17
Transcript (Including UTRs)
   Position: hg19 chr11:2,421,980-2,425,106 Size: 3,127 Total Exon Count: 3 Strand: +
Coding Region
   Position: hg19 chr11:2,423,864-2,424,853 Size: 990 Coding Exon Count: 1 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr11:2,421,980-2,425,106)mRNA (may differ from genome)Protein (329 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMalacardsMGIOMIMPubMedUniProtKB
BioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: TSSC4_HUMAN
DESCRIPTION: RecName: Full=Protein TSSC4; AltName: Full=Tumor-suppressing STF cDNA 4 protein; AltName: Full=Tumor-suppressing subchromosomal transferable fragment candidate gene 4 protein;
TISSUE SPECIFICITY: Expressed in fetal brain, lung, liver and kidney. Widely expressed in adult tissues.
SIMILARITY: Belongs to the TSSC4 family.

-  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


-  MalaCards Disease Associations
  MalaCards Gene Search: TSSC4
Diseases sorted by gene-association score: beckwith-wiedemann syndrome (10), wilson-turner syndrome (4)

-  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: 38.50 RPKM in Testis
Total median expression: 605.04 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 -93.10229-0.407 Picture PostScript Text
3' UTR -118.40253-0.468 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:
PF15264 - Tumour suppressing sub-chromosomal transferable candidate 4

ModBase Predicted Comparative 3D Structure on Q9Y5U2
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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
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
 RGD    
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005515 protein binding


-  Descriptions from all associated GenBank mRNAs
  LF205116 - JP 2014500723-A/12619: Polycomb-Associated Non-Coding RNAs.
LF205118 - JP 2014500723-A/12621: Polycomb-Associated Non-Coding RNAs.
LF205120 - JP 2014500723-A/12623: Polycomb-Associated Non-Coding RNAs.
KM576715 - Homo sapiens clone CD81-TSSC4_C8middle-T1 mRNA sequence.
BC050616 - Homo sapiens tumor suppressing subtransferable candidate 4, mRNA (cDNA clone MGC:60084 IMAGE:5744058), complete cds.
LF207991 - JP 2014500723-A/15494: Polycomb-Associated Non-Coding RNAs.
LF213933 - JP 2014500723-A/21436: Polycomb-Associated Non-Coding RNAs.
BC006091 - Homo sapiens tumor suppressing subtransferable candidate 4, mRNA (cDNA clone MGC:12673 IMAGE:3677524), complete cds.
AF125568 - Homo sapiens tumor suppressing STF cDNA 4 (TSSC4) mRNA, complete cds.
JD210613 - Sequence 191637 from Patent EP1572962.
JD366840 - Sequence 347864 from Patent EP1572962.
JD475871 - Sequence 456895 from Patent EP1572962.
CU690742 - Synthetic construct Homo sapiens gateway clone IMAGE:100021299 5' read TSSC4 mRNA.
CU675239 - Synthetic construct Homo sapiens gateway clone IMAGE:100023321 5' read TSSC4 mRNA.
HQ448171 - Synthetic construct Homo sapiens clone IMAGE:100071562; CCSB005071_02 tumor suppressing subtransferable candidate 4 (TSSC4) gene, encodes complete protein.
KJ898154 - Synthetic construct Homo sapiens clone ccsbBroadEn_07548 TSSC4 gene, encodes complete protein.
KJ902058 - Synthetic construct Homo sapiens clone ccsbBroadEn_11452 TSSC4 gene, encodes complete protein.
LF370771 - JP 2014500723-A/178274: Polycomb-Associated Non-Coding RNAs.
LF370772 - JP 2014500723-A/178275: Polycomb-Associated Non-Coding RNAs.
JD387622 - Sequence 368646 from Patent EP1572962.
JD264339 - Sequence 245363 from Patent EP1572962.
JD054356 - Sequence 35380 from Patent EP1572962.
JD054357 - Sequence 35381 from Patent EP1572962.
JD123486 - Sequence 104510 from Patent EP1572962.
LF370773 - JP 2014500723-A/178276: Polycomb-Associated Non-Coding RNAs.
JD209274 - Sequence 190298 from Patent EP1572962.
JD077504 - Sequence 58528 from Patent EP1572962.
JD105743 - Sequence 86767 from Patent EP1572962.
JD071044 - Sequence 52068 from Patent EP1572962.
JD070898 - Sequence 51922 from Patent EP1572962.
JD222709 - Sequence 203733 from Patent EP1572962.
JD219010 - Sequence 200034 from Patent EP1572962.
JD220770 - Sequence 201794 from Patent EP1572962.
JD498859 - Sequence 479883 from Patent EP1572962.
JD464522 - Sequence 445546 from Patent EP1572962.
MA440693 - JP 2018138019-A/12619: Polycomb-Associated Non-Coding RNAs.
MA440695 - JP 2018138019-A/12621: Polycomb-Associated Non-Coding RNAs.
MA440697 - JP 2018138019-A/12623: Polycomb-Associated Non-Coding RNAs.
MA449510 - JP 2018138019-A/21436: Polycomb-Associated Non-Coding RNAs.
MA606348 - JP 2018138019-A/178274: Polycomb-Associated Non-Coding RNAs.
MA606349 - JP 2018138019-A/178275: Polycomb-Associated Non-Coding RNAs.
MA606350 - JP 2018138019-A/178276: Polycomb-Associated Non-Coding RNAs.
MA443568 - JP 2018138019-A/15494: Polycomb-Associated Non-Coding RNAs.

-  Other Names for This Gene
  Alternate Gene Symbols: C9JS66, ENST00000333256.1, ENST00000333256.10, ENST00000333256.2, ENST00000333256.3, ENST00000333256.4, ENST00000333256.5, ENST00000333256.6, ENST00000333256.7, ENST00000333256.8, ENST00000333256.9, NM_005706, Q86VL2, Q9BRS6, Q9Y5U2, TSSC4 , TSSC4_HUMAN, uc317tqk.1, uc317tqk.2
UCSC ID: ENST00000333256.11_7
RefSeq Accession: NM_005706.4
Protein: Q9Y5U2 (aka TSSC4_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.