Human Gene LINC00469 (uc010dfo.2) Description and Page Index
  Description: Homo sapiens long intergenic non-protein coding RNA 469 (LINC00469), non-coding RNA.
Transcript (Including UTRs)
   Position: hg19 chr17:71,745,409-71,824,676 Size: 79,268 Total Exon Count: 4 Strand: -
Coding Region
   Position: hg19 chr17:71,746,421-71,824,589 Size: 78,169 Coding Exon Count: 4 

Page IndexSequence and LinksGene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA Structure
Protein StructureOther SpeciesmRNA DescriptionsOther NamesModel InformationMethods
Data last updated: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr17:71,745,409-71,824,676)mRNA (may differ from genome)Protein (149 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaBioGPS
CGAPEnsemblEntrez GeneExonPrimerGeneCardsH-INV
HGNCLynxMGIPubMedStanford SOURCEUniProtKB

+  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: 0.16 RPKM in Spleen
Total median expression: 0.32 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 -14.5087-0.167 Picture PostScript Text
3' UTR -351.611012-0.347 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
  ModBase Predicted Comparative 3D Structure on A4QMQ2
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 orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
      
      
      
      
      

-  Descriptions from all associated GenBank mRNAs
  AK097638 - Homo sapiens cDNA FLJ40319 fis, clone TESTI2030754.
JD562418 - Sequence 543442 from Patent EP1572962.
JD323471 - Sequence 304495 from Patent EP1572962.
JD449843 - Sequence 430867 from Patent EP1572962.
JD333113 - Sequence 314137 from Patent EP1572962.
JD395920 - Sequence 376944 from Patent EP1572962.
JD535713 - Sequence 516737 from Patent EP1572962.
JD539377 - Sequence 520401 from Patent EP1572962.
JD400373 - Sequence 381397 from Patent EP1572962.
JD101430 - Sequence 82454 from Patent EP1572962.
JD252467 - Sequence 233491 from Patent EP1572962.
JD228407 - Sequence 209431 from Patent EP1572962.
JD320064 - Sequence 301088 from Patent EP1572962.
JD329270 - Sequence 310294 from Patent EP1572962.
JD382221 - Sequence 363245 from Patent EP1572962.
JD370645 - Sequence 351669 from Patent EP1572962.
JD181072 - Sequence 162096 from Patent EP1572962.
BC101213 - Homo sapiens chromosome 17 open reading frame 54, mRNA (cDNA clone IMAGE:40022035), partial cds.
BC101214 - Homo sapiens chromosome 17 open reading frame 54, mRNA (cDNA clone IMAGE:40022036).
BC101215 - Homo sapiens chromosome 17 open reading frame 54, mRNA (cDNA clone IMAGE:40022040), partial cds.
JD230463 - Sequence 211487 from Patent EP1572962.
KJ904115 - Synthetic construct Homo sapiens clone ccsbBroadEn_13509 LINC00469 gene, encodes complete protein.

-  Other Names for This Gene
  Alternate Gene Symbols: A4QMQ2, A4QMQ2_HUMAN, C17orf54, NR_027146
UCSC ID: uc010dfo.2
RefSeq Accession: NR_027146
Protein: A4QMQ2

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NR_027146.1
exon count: 4CDS single in 3' UTR: no RNA size: 1549
ORF size: 450CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 913.00frame 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.