Human Gene EPHA6 (ENST00000389672.10_5) from GENCODE V47lift37
  Description: EPH receptor A6, transcript variant 1 (from RefSeq NM_001080448.3)
Gencode Transcript: ENST00000389672.10_5
Gencode Gene: ENSG00000080224.18_14
Transcript (Including UTRs)
   Position: hg19 chr3:96,533,438-97,480,376 Size: 946,939 Total Exon Count: 18 Strand: +
Coding Region
   Position: hg19 chr3:96,533,468-97,467,545 Size: 934,078 Coding Exon Count: 18 

Page IndexSequence and LinksPrimersMalaCardsCTDGene Alleles
RNA-Seq ExpressionRNA StructureOther SpeciesmRNA DescriptionsOther NamesModel Information
Methods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr3:96,533,438-97,480,376)mRNA (may differ from genome)Protein (1130 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMalacardsMGIOMIMPubMedUniProtKB
WikipediaBioGrid 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


-  MalaCards Disease Associations
  MalaCards Gene Search: EPHA6
Diseases sorted by gene-association score: oculoauricular syndrome (12)

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

+  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: 5.27 RPKM in Testis
Total median expression: 13.42 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -11.4030-0.380 Picture PostScript Text
3' UTR -2939.3712831-0.229 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.

-  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    
 RGDEnsembl   
      
      

-  Descriptions from all associated GenBank mRNAs
  AK092565 - Homo sapiens cDNA FLJ35246 fis, clone PROST2003324, highly similar to Ephrin type-A receptor 6 precursor (EC 2.7.10.1).
AX747601 - Sequence 1126 from Patent EP1308459.
AY358738 - Homo sapiens clone DNA153579 EPA6 (UNQ6114) mRNA, complete cds.
BC156733 - Synthetic construct Homo sapiens clone IMAGE:100062224, MGC:190210 EPH receptor A6 (EPHA6) mRNA, encodes complete protein.
AK302040 - Homo sapiens cDNA FLJ60941 complete cds, highly similar to Ephrin type-A receptor 6 precursor (EC2.7.10.1).
AK310249 - Homo sapiens cDNA, FLJ17291.
BC031881 - Homo sapiens cDNA clone IMAGE:5163936, containing frame-shift errors.
BC067287 - Homo sapiens cDNA clone IMAGE:30378891, containing frame-shift errors.
AK302080 - Homo sapiens cDNA FLJ54792 complete cds, highly similar to Ephrin type-A receptor 6 precursor (EC 2.7.10.1).
AL133666 - Homo sapiens mRNA; cDNA DKFZp434C1418 (from clone DKFZp434C1418).
JD212811 - Sequence 193835 from Patent EP1572962.
JD262021 - Sequence 243045 from Patent EP1572962.
JD359687 - Sequence 340711 from Patent EP1572962.
JD119919 - Sequence 100943 from Patent EP1572962.
JD153335 - Sequence 134359 from Patent EP1572962.
JD153336 - Sequence 134360 from Patent EP1572962.
JD228845 - Sequence 209869 from Patent EP1572962.
JD259738 - Sequence 240762 from Patent EP1572962.
JD242696 - Sequence 223720 from Patent EP1572962.
AK000957 - Homo sapiens cDNA FLJ10095 fis, clone HEMBA1002430.

-  Other Names for This Gene
  Alternate Gene Symbols: A0A0B4J1T8, A0A0B4J1T8_HUMAN, ENST00000389672.1, ENST00000389672.2, ENST00000389672.3, ENST00000389672.4, ENST00000389672.5, ENST00000389672.6, ENST00000389672.7, ENST00000389672.8, ENST00000389672.9, EPHA6 , NM_001080448, uc318tgy.1, uc318tgy.2
UCSC ID: ENST00000389672.10_5
RefSeq Accession: NM_001080448.3

-  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.