Human Gene FNDC11 (uc002yfj.3)
  Description: Homo sapiens chromosome 20 open reading frame 195 (FNDC11), mRNA.
Transcript (Including UTRs)
   Position: hg19 chr20:62,184,373-62,188,035 Size: 3,663 Total Exon Count: 2 Strand: +
Coding Region
   Position: hg19 chr20:62,187,017-62,187,973 Size: 957 Coding Exon Count: 1 

Page IndexSequence and LinksPrimersGene AllelesRNA-Seq ExpressionMicroarray Expression
RNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA DescriptionsOther Names
Model InformationMethods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr20:62,184,373-62,188,035)mRNA (may differ from genome)Protein (318 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsGeneNetwork
H-INVHPRDLynxMGIneXtProtPubMed
TreefamUniProtKBBioGrid CRISPR DB

-  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: 109.40 RPKM in Testis
Total median expression: 120.30 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 -31.6092-0.343 Picture PostScript Text
3' UTR -6.3062-0.102 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
IPR003961 - Fibronectin_type3
IPR013783 - Ig-like_fold

SCOP Domains:
49265 - Fibronectin type III

ModBase Predicted Comparative 3D Structure on Q9BVV2
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 orthologNo orthologNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
      
      
      

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


-  Descriptions from all associated GenBank mRNAs
  BC000912 - Homo sapiens chromosome 20 open reading frame 195, mRNA (cDNA clone MGC:5356 IMAGE:3048411), complete cds.
JD264673 - Sequence 245697 from Patent EP1572962.
AK125168 - Homo sapiens cDNA FLJ43178 fis, clone FCBBF3012288.
KJ894636 - Synthetic construct Homo sapiens clone ccsbBroadEn_04030 C20orf195 gene, encodes complete protein.

-  Other Names for This Gene
  Alternate Gene Symbols: C20orf195, CT195_HUMAN, NM_024059, NP_076964, Q9BVV2
UCSC ID: uc002yfj.3
RefSeq Accession: NM_024059
Protein: Q9BVV2 (aka CT195_HUMAN)
CCDS: CCDS13526.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_024059.2
exon count: 2CDS single in 3' UTR: no RNA size: 1124
ORF size: 957CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 2059.00frame shift in genome: no % Coverage: 98.84
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.