Gene

Slycopersicum Solyc01g016550.1

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

Slycopersicum_Solyc01g016550.1
Solyc01g016550.1
SL2.50ch01 20495987 20496314 Phytozome ITAG2.4 Solanum_lycopersicum
Coding?
No


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

Slycopersicum_Solyc01g016550.1.1
Solyc01g016550.1.1
Low No 258
Coding potential...
Type: noncoding Potential: -0.438
Folding energies...
MFEI: -39.574 AMFE: -0.667
GC content
%: 59.302


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
Slycopersicum_Solyc01g016550.1.1  RepBase (RepeatMasker) 2014-01-31 MERMITE18F


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).

Solyc01g016550.1.png