GreeNC

Gene information

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
Graimondii_Gorai.013G180700 Gorai.013G180700	Chr13	47520227	47522208	Phytozome	v2.1	Gossypium_raimondii	Coding? No

Transcript features

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
Graimondii_Gorai.013G180700.1 Gorai.013G180700.1 PAC:26787872	Low	No	354		Get ORF Coding potential... Type: coding Potential: 0.102 Folding energies... MFEI: -19.746 AMFE: -0.538 GC content %: 36.723
Graimondii_Gorai.013G180700.2 Gorai.013G180700.2 PAC:26787873	Low	No	859		Get ORF Coding potential... Type: noncoding Potential: -0.709 Folding energies... MFEI: -19.022 AMFE: -0.573 GC content %: 33.178

Matches to external databases

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
Graimondii_Gorai.013G180700.2	SwissProt	2015-06-01	Q2L8Z9	2.0e-14

Gene models

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