Human Gene ANKRD13C (uc009wbk.3)
  Description: Homo sapiens ankyrin repeat domain 13C (ANKRD13C), mRNA.
Transcript (Including UTRs)
   Position: hg19 chr1:70,724,685-70,820,417 Size: 95,733 Total Exon Count: 12 Strand: -
Coding Region
   Position: hg19 chr1:70,728,400-70,820,091 Size: 91,692 Coding Exon Count: 12 

Page IndexSequence and LinksPrimersCTDGene AllelesRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesmRNA DescriptionsOther Names
Model InformationMethods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr1:70,724,685-70,820,417)mRNA (may differ from genome)Protein (506 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
GeneNetworkH-INVHGNCLynxMGIOMIM
PubMedTreefamUniProtKBWikipediaBioGrid 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


-  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: 11.53 RPKM in Brain - Cerebellar Hemisphere
Total median expression: 268.59 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 -145.81326-0.447 Picture PostScript Text
3' UTR -902.433715-0.243 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:
PF00023 - Ankyrin repeat
PF11904 - GPCR-chaperone

SCOP Domains:
48403 - Ankyrin repeat

ModBase Predicted Comparative 3D Structure on Q8N6S4-2
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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
  AL136717 - Homo sapiens mRNA; cDNA DKFZp566D1346 (from clone DKFZp566D1346).
BC028840 - Homo sapiens ankyrin repeat domain 13C, mRNA (cDNA clone MGC:39111 IMAGE:4558748), complete cds.
AB462946 - Synthetic construct DNA, clone: pF1KB8699, Homo sapiens ANKRD13C gene for ankyrin repeat domain 13C, without stop codon, in Flexi system.
AM392912 - Synthetic construct Homo sapiens clone IMAGE:100002388 for hypothetical protein (ANKRD13C gene).
AM393469 - Synthetic construct Homo sapiens clone IMAGE:100002387 for hypothetical protein (ANKRD13C gene).
AK074187 - Homo sapiens cDNA FLJ14998 fis, clone NT2RP3001396, highly similar to Ankyrin repeat domain-containing protein 13C.
JD091925 - Sequence 72949 from Patent EP1572962.
JD224154 - Sequence 205178 from Patent EP1572962.
JD085372 - Sequence 66396 from Patent EP1572962.
JD244694 - Sequence 225718 from Patent EP1572962.
JD181600 - Sequence 162624 from Patent EP1572962.
JD048455 - Sequence 29479 from Patent EP1572962.
JD503018 - Sequence 484042 from Patent EP1572962.
JD350179 - Sequence 331203 from Patent EP1572962.
JD268607 - Sequence 249631 from Patent EP1572962.
JD111128 - Sequence 92152 from Patent EP1572962.
BC016937 - Homo sapiens ankyrin repeat domain 13C, mRNA (cDNA clone IMAGE:3845875), complete cds.
JD388741 - Sequence 369765 from Patent EP1572962.
JD236202 - Sequence 217226 from Patent EP1572962.
JD196690 - Sequence 177714 from Patent EP1572962.
JD538517 - Sequence 519541 from Patent EP1572962.
JD332884 - Sequence 313908 from Patent EP1572962.
JD336578 - Sequence 317602 from Patent EP1572962.
JD443937 - Sequence 424961 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: AL136717, NM_030816, NP_110443, Q8N6S4-2
UCSC ID: uc009wbk.3
RefSeq Accession: NM_030816
Protein: Q8N6S4-2, splice isoform of Q8N6S4

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: AL136717.1
exon count: 12CDS single in 3' UTR: no RNA size: 3346
ORF size: 1521CDS single in intron: no Alignment % ID: 99.88
txCdsPredict score: 3103.50frame shift in genome: no % Coverage: 99.43
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.