Human Gene HSD17B1-AS1 (uc002hzy.3)
  Description: Homo sapiens cDNA FLJ32461 fis, clone SKNMC1000168.
Transcript (Including UTRs)
   Position: hg19 chr17:40,704,454-40,706,728 Size: 2,275 Total Exon Count: 1 Strand: -
Coding Region
   Position: hg19 chr17:40,704,840-40,705,580 Size: 741 Coding Exon Count: 1 

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 (chr17:40,704,454-40,706,728)mRNA (may differ from genome)Protein (246 aa)
Gene SorterGenome BrowserOther Species FASTATable SchemaEnsemblExonPrimer
GeneCardsH-INVMGIPubMed

-  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: 10.51 RPKM in Brain - Cerebellum
Total median expression: 373.57 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 -518.921148-0.452 Picture PostScript Text
3' UTR -149.90386-0.388 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
  LF212455 - JP 2014500723-A/19958: Polycomb-Associated Non-Coding RNAs.
BC065478 - Homo sapiens cDNA clone IMAGE:5090880, partial cds.
BC064353 - Homo sapiens cDNA clone IMAGE:4708512, partial cds.
BC037415 - Homo sapiens, clone IMAGE:5164359, mRNA.
AK057023 - Homo sapiens cDNA FLJ32461 fis, clone SKNMC1000168.
BC080562 - Homo sapiens cDNA clone IMAGE:6340312.
BC019592 - Homo sapiens, clone IMAGE:4915712, mRNA.
BC033110 - Homo sapiens, clone IMAGE:5443970, mRNA, partial cds.
BC043620 - Homo sapiens cDNA clone IMAGE:6160096, partial cds.
JD183573 - Sequence 164597 from Patent EP1572962.
JD116685 - Sequence 97709 from Patent EP1572962.
JD316104 - Sequence 297128 from Patent EP1572962.
JD539117 - Sequence 520141 from Patent EP1572962.
JD210608 - Sequence 191632 from Patent EP1572962.
LF209345 - JP 2014500723-A/16848: Polycomb-Associated Non-Coding RNAs.
LF327881 - JP 2014500723-A/135384: Polycomb-Associated Non-Coding RNAs.
JD101436 - Sequence 82460 from Patent EP1572962.
JD141256 - Sequence 122280 from Patent EP1572962.
JD336780 - Sequence 317804 from Patent EP1572962.
LF213271 - JP 2014500723-A/20774: Polycomb-Associated Non-Coding RNAs.
JD387347 - Sequence 368371 from Patent EP1572962.
JD239395 - Sequence 220419 from Patent EP1572962.
JD163606 - Sequence 144630 from Patent EP1572962.
JD307475 - Sequence 288499 from Patent EP1572962.
JD141232 - Sequence 122256 from Patent EP1572962.
JD120724 - Sequence 101748 from Patent EP1572962.
JD506978 - Sequence 488002 from Patent EP1572962.
JD406555 - Sequence 387579 from Patent EP1572962.
JD197972 - Sequence 178996 from Patent EP1572962.
JD336057 - Sequence 317081 from Patent EP1572962.
JD451932 - Sequence 432956 from Patent EP1572962.
MA563458 - JP 2018138019-A/135384: Polycomb-Associated Non-Coding RNAs.
MA448032 - JP 2018138019-A/19958: Polycomb-Associated Non-Coding RNAs.
MA444922 - JP 2018138019-A/16848: Polycomb-Associated Non-Coding RNAs.
MA448848 - JP 2018138019-A/20774: Polycomb-Associated Non-Coding RNAs.

-  Other Names for This Gene
  Alternate Gene Symbols: BC043620
UCSC ID: uc002hzy.3
Representative RNA: BC043620

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: BC043620.2
exon count: 1CDS single in 3' UTR: no RNA size: 2227
ORF size: 741CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 1009.00frame shift in genome: no % Coverage: 96.50
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.