Transcript: lnc-SLC39A11-1:10

Basic information

LNCipedia transcript ID: lnc-SLC39A11-1:10 
LNCipedia gene ID: lnc-SLC39A11-1
Location (hg38): chr17:72420718-72592665
Strand: -
Class: intergenic
Sequence Ontology term: lincRNA
Transcript size: 773 bp
Exons: 3
Sources: Broad Institute; NONCODE v4
Alternative transcript names: TCONS_00025759; NONHSAT055695
Alternative gene names: XLOC_012568; linc-ABCA5-3


RNA sequence:

Structure:

Protein coding potential

Metric Raw result Interpretation
PRIDE reprocessing 2.0 0 non-coding 
Lee translation initiation sites 0 non-coding 
PhyloCSF score -83.3361 non-coding 
CPAT coding probability 19.65% non-coding 
Bazzini small ORFs 0 non-coding 

In stringent set: yes

Locus conservation

Locus conservation?
lnc-SLC39A11-1:10 no no no no

Available literature

  1. Schmidt (2016), The lncRNA SLNCR1 Mediates Melanoma Invasion through a Conserved SRA1-like Region., Cell Rep
  2. Sun (2016), Long Intergenic Noncoding RNA 00511 Acts as an Oncogene in Non-small-cell Lung Cancer by Binding to EZH2 and Suppressing p57., Mol Ther Nucleic Acids
  3. Zheng (2016), Pancreatic cancer risk variant in LINC00673 creates a miR-1231 binding site and interferes with PTPN11 degradation., Nat. Genet.
  4. Cabanski (2015), Pan-cancer transcriptome analysis reveals long noncoding RNAs with conserved function., RNA Biol
  5. Morán (2012), Human β cell transcriptome analysis uncovers lncRNAs that are tissue-specific, dynamically regulated, and abnormally expressed in type 2 diabetes., Cell Metab.


LNCipedia transcript ID history

LNCipedia version LNCipedia transcript ID
1.3 lnc-SLC39A11-2:7
3.1 lnc-SLC39A11-1:10
4.0 lnc-SLC39A11-1:10
4.1 lnc-SLC39A11-1:10
5.0 lnc-SLC39A11-1:10
5.1 lnc-GRB2-54:20
5.2 lnc-SLC39A11-1:10