Athaliana AT5G01015

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 Assembly Species Details

Athaliana_AT5G01015
AT5G01015
Chr5 5256 5907 v11 Arabidopsis thaliana (Phytozome 13)
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 Orthologous group Sequence Details

Athaliana_AT5G01015.1
AT5G01015.1
Low No 532 OG0009681
Coding potential...
Type: noncoding Potential: -0.803
Folding energies...
MFEI: -29.511 AMFE: -0.660
GC content
%: 44.737
Athaliana_AT5G01015.2
AT5G01015.2
High No 325 OG0009681
Coding potential...
Type: noncoding Potential: -0.938
Folding energies...
MFEI: -31.138 AMFE: -0.617
GC content
%: 50.462


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
Athaliana_AT5G01015.1  RepBase (RepeatMasker) 2014-01-31 LINE?


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).

Athaliana_AT5G01015.png