Human Gene LINC00657 (uc002xet.3) Description and Page Index
  Description: Homo sapiens long intergenic non-protein coding RNA 657 (LINC00657), non-coding RNA.
Transcript (Including UTRs)
   Position: hg19 chr20:34,633,540-34,638,882 Size: 5,343 Total Exon Count: 1 Strand: -
Coding Region
   Position: hg19 chr20:34,638,314-34,638,640 Size: 327 Coding Exon Count: 1 

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

-  Sequence and Links to Tools and Databases
Genomic Sequence (chr20:34,633,540-34,638,882)mRNA (may differ from genome)Protein (108 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
BioGPSCGAPEnsemblEntrez GeneExonPrimerGeneCards

+  Common Gene Haplotype Alleles
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-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 142.01 RPKM in Brain - Frontal Cortex (BA9)
Total median expression: 3550.77 RPKM

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

+  Microarray Expression Data
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-  mRNA Secondary Structure of 3' and 5' UTRs
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -115.70242-0.478 Picture PostScript Text
3' UTR -1436.474774-0.301 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
  DL491594 - Novel nucleic acids.
DL490189 - Novel nucleic acids.
JD027073 - Sequence 8097 from Patent EP1572962.
JD032931 - Sequence 13955 from Patent EP1572962.
JD020731 - Sequence 1755 from Patent EP1572962.
JD025947 - Sequence 6971 from Patent EP1572962.
JD033740 - Sequence 14764 from Patent EP1572962.
JD021305 - Sequence 2329 from Patent EP1572962.
JD034576 - Sequence 15600 from Patent EP1572962.
DQ583589 - Homo sapiens piRNA piR-50701, complete sequence.
JD056382 - Sequence 37406 from Patent EP1572962.
JD401651 - Sequence 382675 from Patent EP1572962.
JD306647 - Sequence 287671 from Patent EP1572962.
JD322974 - Sequence 303998 from Patent EP1572962.
JD557355 - Sequence 538379 from Patent EP1572962.
JD395436 - Sequence 376460 from Patent EP1572962.
JD425087 - Sequence 406111 from Patent EP1572962.
JD395435 - Sequence 376459 from Patent EP1572962.
JD401650 - Sequence 382674 from Patent EP1572962.
JD395434 - Sequence 376458 from Patent EP1572962.
JD401649 - Sequence 382673 from Patent EP1572962.
JD238496 - Sequence 219520 from Patent EP1572962.
AK090641 - Homo sapiens cDNA FLJ33322 fis, clone BNGH42008510.
AX746554 - Sequence 79 from Patent EP1308459.
BC011592 - Homo sapiens hypothetical protein LOC647979, mRNA (cDNA clone IMAGE:4553891), with apparent retained intron.
BC031254 - Homo sapiens cDNA clone IMAGE:5270880.
DQ601060 - Homo sapiens piRNA piR-39126, complete sequence.
DL491556 - Novel nucleic acids.
DL490159 - Novel nucleic acids.

-  Other Names for This Gene
  Alternate Gene Symbols: NR_027451
UCSC ID: uc002xet.3
RefSeq Accession: NR_027451

-  Gene Model Information
category: coding nonsense-mediated-decay: no RNA accession: NR_027451.1
exon count: 1CDS single in 3' UTR: no RNA size: 5378
ORF size: 327CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 854.00frame shift in genome: no % Coverage: 99.35
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.