Gene

Pvirgatum Pavir.J20722

From GreeNC

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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

Pvirgatum_Pavir.J20722
Pavir.J20722
contig225511 999 1511 Phytozome [[Species:|]]"Species:" cannot be used as a page name in this wiki.
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

Pvirgatum_Pavir.J20722.1
Pavir.J20722.1
PAC:30315080
Low No 442
Coding potential...
Type: noncoding Potential: -0.790
Folding energies...
MFEI: -25.679 AMFE: -0.516
GC content
%: 49.774


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
Pvirgatum_Pavir.J20722.1  RepBase (RepeatMasker) 2014-01-31 MuDR1_HV


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).

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