Transcript: SAMMSON:2

Basic information

LNCipedia transcript ID: SAMMSON:2 ?
HGNC Gene Symbol: SAMMSON    ?
HGNC Full Gene Name: survival associated mitochondrial melanoma specific oncogenic non-coding RNA
Location (hg19): chr3:70048895-70064469
Strand: +
Class: intergenic
Transcript size: 2044 bp
Exons: 4
Sources: Biogazelle lncRNA chip; Ensembl release 64 - Sep 2011; Gencode v13; Ensembl release 68 - Jul 2012; NONCODE v4; Ensembl release 75 - Feb 2014; Ensembl release 83 - Dec 2015
Alternative transcript names: ENST00000483525; ENST00000483525.1; RP11-460N16.1-001; OTTHUMT00000352919.1; NONHSAT090373
Alternative gene names: ENSG00000240405; RP11-460N16.1; ENSG00000240405.1; OTTHUMG00000159017.1; ENSG00000240405.5; LINC01212;


RNA sequence:

Structure:

Protein coding potential


Metric Raw result Interpretation
PRIDE reprocessing 2.0 0 non-coding ?
Lee translation initiation sites 0 non-coding ?
Highest peak:0
PhyloCSF score 15.2547 non-coding ?
CPAT coding probability 20.87% non-coding ?
Bazzini small ORFs 0 non-coding ?
In stringent set: yes

Locus conservation

Locus conservation?
SAMMSON:2 no no

Secondary structure information

RNAfold image: download
Randfold minimum free energy: -655.11
Randfold P-value: 0.001

Targetting miRNAs

MirTarget2 predictions:
MicroRNAMirTarget2 score ?
hsa-miR-3915 93.97
hsa-miR-4647 78.96
hsa-miR-4426 78.36
hsa-miR-766-5p 75.55
hsa-miR-4662b 74.81
hsa-miR-146a-3p 74.18
hsa-miR-4329 71.85
hsa-miR-1185-2-3p 68.48
hsa-miR-1185-1-3p 68.14
hsa-miR-4756-5p 66.91
hsa-miR-302b-5p 65.50
hsa-miR-4739 64.53
hsa-miR-302d-5p 64.00
hsa-miR-3664-5p 63.91
hsa-let-7f-2-3p 62.77
hsa-miR-1264 62.43
hsa-miR-515-3p 61.71
hsa-miR-153 61.61
hsa-miR-519e-3p 61.33
hsa-miR-4280 61.11
hsa-miR-766-3p 60.59
hsa-miR-1321 59.50
hsa-miR-466 59.44
hsa-miR-188-3p 58.75
hsa-miR-942 57.07
hsa-miR-4659b-5p 56.28
hsa-miR-4668-3p 55.04
hsa-miR-33b-3p 54.70
hsa-miR-4803 54.69
hsa-miR-502-5p 54.41
hsa-miR-1200 54.00
hsa-miR-1915-5p 53.97
hsa-miR-1305 53.96
hsa-miR-302a-5p 53.17
hsa-miR-4443 52.88
hsa-miR-511 52.44
hsa-miR-5187-3p 51.79
hsa-miR-4799-5p 51.21
hsa-miR-665 51.10
hsa-miR-3617 50.04
hsa-miR-3667-3p 50.00

Available literature

  1. Leucci (2016), Melanoma addiction to the long non-coding RNA SAMMSON., Nature


LNCipedia transcript ID history

LNCipedia version Deprecated transcript ID
1.3 lnc-MITF-1:2
3.1 lnc-MITF-1:3