Human Gene AP4B1-AS1 (uc001edv.2)
  Description: Homo sapiens AP4B1 antisense RNA 1 (AP4B1-AS1), non-coding RNA.
Transcript (Including UTRs)
   Position: hg19 chr1:114,399,257-114,443,859 Size: 44,603 Total Exon Count: 5 Strand: +
Coding Region
   Position: hg19 chr1:114,400,625-114,442,657 Size: 42,033 Coding Exon Count: 3 

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

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr1:114,399,257-114,443,859)mRNA (may differ from genome)Protein (99 aa)
Gene SorterGenome BrowserOther Species FASTATable SchemaBioGPSEnsembl
ExonPrimerGeneCardsH-INVHGNCLynxMGI
PubMed

-  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: 9.57 RPKM in Brain - Cerebellar Hemisphere
Total median expression: 210.98 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 -43.02232-0.185 Picture PostScript Text
3' UTR -345.191202-0.287 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
      
      
      
      
      

-  Descriptions from all associated GenBank mRNAs
  AK123199 - Homo sapiens cDNA FLJ41205 fis, clone BRALZ2010186.
JD229742 - Sequence 210766 from Patent EP1572962.
JD536187 - Sequence 517211 from Patent EP1572962.
JD376050 - Sequence 357074 from Patent EP1572962.
JD497758 - Sequence 478782 from Patent EP1572962.
JD144663 - Sequence 125687 from Patent EP1572962.
JD538350 - Sequence 519374 from Patent EP1572962.
JD542829 - Sequence 523853 from Patent EP1572962.
JD542830 - Sequence 523854 from Patent EP1572962.
JD542831 - Sequence 523855 from Patent EP1572962.
JD542832 - Sequence 523856 from Patent EP1572962.
JD212819 - Sequence 193843 from Patent EP1572962.
JD407488 - Sequence 388512 from Patent EP1572962.
JD212820 - Sequence 193844 from Patent EP1572962.
JD041671 - Sequence 22695 from Patent EP1572962.
JD055100 - Sequence 36124 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: NR_037864, uc001edv.1
UCSC ID: uc001edv.2
RefSeq Accession: NR_037864

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NR_037864.1
exon count: 5CDS single in 3' UTR: no RNA size: 1734
ORF size: 300CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 672.50frame shift in genome: no % Coverage: 100.00
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.