Human Gene ANKRD46 (uc003yjn.2)
  Description: Homo sapiens ankyrin repeat domain 46 (ANKRD46), transcript variant 3, mRNA.
RefSeq Summary (NM_001270378): This gene encodes a protein containing multiple ankyrin repeats. Ankyrin domains function in protein-protein interactions in a variety of cellular processes. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Jun 2012].
Transcript (Including UTRs)
   Position: hg19 chr8:101,533,000-101,571,939 Size: 38,940 Total Exon Count: 5 Strand: -
Coding Region
   Position: hg19 chr8:101,534,783-101,542,061 Size: 7,279 Coding Exon Count: 3 

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 (chr8:101,533,000-101,571,939)mRNA (may differ from genome)Protein (228 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
H-INVHGNCLynxMGIPubMedUniProtKB
BioGrid 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: 14.63 RPKM in Brain - Frontal Cortex (BA9)
Total median expression: 240.11 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 -339.90804-0.423 Picture PostScript Text
3' UTR -436.041783-0.245 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
PF12796 - Ankyrin repeats (3 copies)
PF13606 - Ankyrin repeat
PF13637 - Ankyrin repeats (many copies)
PF13857 - Ankyrin repeats (many copies)

SCOP Domains:
48403 - Ankyrin repeat

ModBase Predicted Comparative 3D Structure on Q86W74-2
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 DetailsGene Details    
Gene SorterGene Sorter    
 RGD    
 Protein Sequence    
 Alignment    

-  Descriptions from all associated GenBank mRNAs
  BC050396 - Homo sapiens ankyrin repeat domain 46, mRNA (cDNA clone MGC:52011 IMAGE:6065488), complete cds.
U79297 - Human clone 23589 mRNA sequence.
BC015811 - Homo sapiens ankyrin repeat domain 46, mRNA (cDNA clone IMAGE:3920789), with apparent retained intron.
AL832842 - Homo sapiens mRNA; cDNA DKFZp667C0525 (from clone DKFZp667C0525).
BC060843 - Homo sapiens ankyrin repeat domain 46, mRNA (cDNA clone MGC:71752 IMAGE:30341860), complete cds.
AB077205 - Homo sapiens ank-s mRNA for ankyrin repeat small protein, complete cds.
AK095235 - Homo sapiens cDNA FLJ37916 fis, clone CTONG1000094, highly similar to Ankyrin repeat domain-containing protein 46.
BC035087 - Homo sapiens ankyrin repeat domain 46, mRNA (cDNA clone IMAGE:5261039), with apparent retained intron.
JD510489 - Sequence 491513 from Patent EP1572962.
JD273767 - Sequence 254791 from Patent EP1572962.
JD210751 - Sequence 191775 from Patent EP1572962.
JD243464 - Sequence 224488 from Patent EP1572962.
JD243593 - Sequence 224617 from Patent EP1572962.
JD356726 - Sequence 337750 from Patent EP1572962.
JD146437 - Sequence 127461 from Patent EP1572962.
JD314712 - Sequence 295736 from Patent EP1572962.
JD566913 - Sequence 547937 from Patent EP1572962.
JD309771 - Sequence 290795 from Patent EP1572962.
JD537519 - Sequence 518543 from Patent EP1572962.
JD221939 - Sequence 202963 from Patent EP1572962.
KJ895696 - Synthetic construct Homo sapiens clone ccsbBroadEn_05090 ANKRD46 gene, encodes complete protein.
DL491358 - Novel nucleic acids.
DL489988 - Novel nucleic acids.
BC009500 - Homo sapiens cDNA clone IMAGE:3957507, partial cds.
JD431530 - Sequence 412554 from Patent EP1572962.
JD418303 - Sequence 399327 from Patent EP1572962.
JD223666 - Sequence 204690 from Patent EP1572962.
JD544642 - Sequence 525666 from Patent EP1572962.
JD518243 - Sequence 499267 from Patent EP1572962.
JD078004 - Sequence 59028 from Patent EP1572962.
JD060432 - Sequence 41456 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: NM_001270378, NP_940683, Q86W74-2, uc003yjn.1
UCSC ID: uc003yjn.2
RefSeq Accession: NM_001270378
Protein: Q86W74-2, splice isoform of Q86W74 CCDS: CCDS6287.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_001270378.1
exon count: 5CDS single in 3' UTR: no RNA size: 3295
ORF size: 687CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 1436.00frame shift in genome: no % Coverage: 99.36
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: 1834# 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.