Transcript: lnc-SMIM37-1:6

Basic information

LNCipedia transcript ID: lnc-SMIM37-1:6 
LNCipedia gene ID: lnc-SMIM37-1
Location (hg38): chr2:110211530-110212823
Strand: -
Class: intronic
Sequence Ontology term: sense_intronic_ncRNA
Transcript size: 461 bp
Exons: 3
Sources: Biogazelle lncRNA chip; Ensembl release 64 - Sep 2011; Gencode v13; Ensembl release 68 - Jul 2012; NONCODE v4; Ensembl release 75 - Feb 2014
Alternative transcript names: ENST00000426713; ENST00000426713.1; LINC00116-002; OTTHUMT00000338107.1; NONHSAT073174
Alternative gene names: ENSG00000175701; NCRNA00116; ENSG00000175701.6; LINC00116; OTTHUMG00000131194.3


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 562.7176 coding 
CPAT coding probability 59.61% coding 
Bazzini small ORFs 1 coding 
seqAAMADVSERTLQLSVLVAFASGVLLGWQANRLRRRYLDWRKRRLQDKLAATQKKLDLA
orfFrame7.76529561
covF1Prop0.407407407

In stringent set: no

Locus conservation

Locus conservation?
lnc-SMIM37-1:6 no no no no

Available literature

  1. Crappé (2013), Combining in silico prediction and ribosome profiling in a genome-wide search for novel putatively coding sORFs., BMC Genomics


LNCipedia transcript ID history

LNCipedia version LNCipedia transcript ID
1.3 lnc-NPHP1-1:5
3.1 lnc-NPHP1-1:5
4.0 lnc-NPHP1-1:5
4.1 lnc-NPHP1-1:5
5.0 lnc-NPHP1-1:5
5.1 lnc-EN1-92:6
5.2 lnc-SMIM37-1:6