Gene

Stuberosum PGSC0003DMG400000038

From GreeNC


Gene information
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This table contains information about coordinates, assembly and annotation regarding the lncRNA-transcribing gene. In details, it shows whether this this gene transcribes any protein-coding transcript.

Gene alias / name Chrom. Start End Source Assembly Species Details

Stuberosum_PGSC0003DMG400000038
PGSC0003DMG400000038
chr01 78239557 78244854 Phytozome v3.4 Solanum_tuberosum
Coding?
Yes


Transcript features
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This table shows how a lncRNA has been classified (high/low confidence) or whether it has been classified as pre-miRNA (go to FAQ for classification criteria). Besides, it displays the lncRNA length and sequence as well as information about the ORF, the coding potential calculated by the Coding Potential Calculator (CPC), and the folding energies calculated by RNAfold.

Transcript alias / name Confidence Pre-miRNA Length Sequence Details

Stuberosum_PGSC0003DMT400000134
PGSC0003DMT400000134
PAC:24419796
Low No 3327
Coding potential...
Type: noncoding Potential: -0.661
Folding energies...
MFEI: -25.621 AMFE: -0.694
GC content
%: 36.940


Matches to external databases
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The lncRNAs from GreeNC have been analysed against the following databases: SwissProt, miRBase, Rfam, RepBase (RepeatMasker), NONCODE, and lncRNAdb. This table displays any association with these databases.

Transcript alias Database Version Hit Evalue
Stuberosum_PGSC0003DMT400000134  SwissProt 2015-06-01 P11704 1.0e-3


Gene models
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Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).

PGSC0003DMG400000038.png