Gene

Cpapaya evm.TU.contig 24415.11

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

Cpapaya_evm.TU.contig_24415.11
evm.TU.contig_24415.11
contig_24415 38325 38636 Phytozome ASGPBv0.4 Carica_papaya
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

Cpapaya_evm.TU.contig_24415.11
evm.TU.contig_24415.11
PAC:16429348
Low No 282
Coding potential...
Type: noncoding Potential: -0.747
Folding energies...
MFEI: -19.681 AMFE: -0.437
GC content
%: 45.035


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
Cpapaya_evm.TU.contig_24415.11  RepBase (RepeatMasker) 2014-01-31 L1-1_CPa


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).

evm.TU.contig_24415.11.png