Human Gene TCAF2 (uc011kti.1)
  Description: Homo sapiens family with sequence similarity 115, member C (TCAF2), transcript variant 1, mRNA.
Transcript (Including UTRs)
   Position: hg19 chr7:143,318,045-143,342,767 Size: 24,723 Total Exon Count: 3 Strand: +
Coding Region
   Position: hg19 chr7:143,320,869-143,341,113 Size: 20,245 Coding Exon Count: 2 

Page IndexSequence and LinksPrimersGene AllelesRNA-Seq ExpressionMicroarray Expression
RNA StructureProtein StructureOther SpeciesmRNA DescriptionsOther NamesModel Information
Methods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr7:143,318,045-143,342,767)mRNA (may differ from genome)Protein (259 aa)
Gene SorterGenome BrowserOther Species FASTATable SchemaAlphaFoldBioGPS
EnsemblExonPrimerGeneCardsGeneNetworkH-INVLynx
MGIPubMedUniProtKB

-  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


+  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: 3.94 RPKM in Cells - EBV-transformed lymphocytes
Total median expression: 41.46 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 -18.4083-0.222 Picture PostScript Text
3' UTR -535.811654-0.324 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 B7Z9E4
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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 Details     
Gene Sorter     
      
      
      

-  Descriptions from all associated GenBank mRNAs
  AK098041 - Homo sapiens cDNA FLJ40722 fis, clone THYMU2028629.
AL832734 - Homo sapiens mRNA; cDNA DKFZp686F2013 (from clone DKFZp686F2013).
BC117233 - Homo sapiens family with sequence similarity 115, member C, mRNA (cDNA clone MGC:150842 IMAGE:40125784), complete cds.
AY167570 - Homo sapiens unknown mRNA.
BC041464 - Homo sapiens, clone IMAGE:5213333, mRNA.
AK315909 - Homo sapiens cDNA, FLJ78808 complete cds, highly similar to Mus musculus experimental autoimmune prostatitis antigen 2 (Eapa2), mRNA.
AK297123 - Homo sapiens cDNA FLJ58905 complete cds, moderately similar to Mus musculus experimental autoimmune prostatitis antigen 2 (Eapa2), mRNA.
BC033189 - Homo sapiens cDNA clone IMAGE:4622649, partial cds.
BC010225 - Homo sapiens hypothetical LOC154761, mRNA (cDNA clone IMAGE:4150153), with apparent retained intron.
AK124492 - Homo sapiens cDNA FLJ42501 fis, clone BRACE2037692.
JD402116 - Sequence 383140 from Patent EP1572962.
JD268201 - Sequence 249225 from Patent EP1572962.
JD183227 - Sequence 164251 from Patent EP1572962.
JD396837 - Sequence 377861 from Patent EP1572962.
JD344595 - Sequence 325619 from Patent EP1572962.
JD255057 - Sequence 236081 from Patent EP1572962.
JD378490 - Sequence 359514 from Patent EP1572962.
JD381832 - Sequence 362856 from Patent EP1572962.
JD170906 - Sequence 151930 from Patent EP1572962.
JD142953 - Sequence 123977 from Patent EP1572962.
JD549786 - Sequence 530810 from Patent EP1572962.
JD120695 - Sequence 101719 from Patent EP1572962.
JD259219 - Sequence 240243 from Patent EP1572962.
JD086121 - Sequence 67145 from Patent EP1572962.
JD054306 - Sequence 35330 from Patent EP1572962.
JD519214 - Sequence 500238 from Patent EP1572962.
JD340224 - Sequence 321248 from Patent EP1572962.
JD128722 - Sequence 109746 from Patent EP1572962.
JD180441 - Sequence 161465 from Patent EP1572962.
JD359740 - Sequence 340764 from Patent EP1572962.
JD258109 - Sequence 239133 from Patent EP1572962.
JD262462 - Sequence 243486 from Patent EP1572962.
JD423810 - Sequence 404834 from Patent EP1572962.
JD050558 - Sequence 31582 from Patent EP1572962.
JD183682 - Sequence 164706 from Patent EP1572962.
JD470585 - Sequence 451609 from Patent EP1572962.
JD055422 - Sequence 36446 from Patent EP1572962.
JD241352 - Sequence 222376 from Patent EP1572962.
JD192287 - Sequence 173311 from Patent EP1572962.
JD248344 - Sequence 229368 from Patent EP1572962.
JD172386 - Sequence 153410 from Patent EP1572962.
JD181639 - Sequence 162663 from Patent EP1572962.
JD240548 - Sequence 221572 from Patent EP1572962.
JD178422 - Sequence 159446 from Patent EP1572962.
JD486161 - Sequence 467185 from Patent EP1572962.
JD127886 - Sequence 108910 from Patent EP1572962.
JD058701 - Sequence 39725 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: B7Z9E4, B7Z9E4_HUMAN, BC033189, FAM115C
UCSC ID: uc011kti.1
RefSeq Accession: NM_001130025
Protein: B7Z9E4

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: BC033189.1
exon count: 3CDS single in 3' UTR: no RNA size: 2524
ORF size: 780CDS single in intron: no Alignment % ID: 99.64
txCdsPredict score: 1760.00frame shift in genome: no % Coverage: 97.94
has start codon: yes stop codon in genome: no # of Alignments: 2
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.