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	Assembly	Species	Details
Ghirsutum_Gohir.D06G068266 [ Gohir.D06G068266]	D06	12632144	12635239	v2.1	Gossypium hirsutum (Phytozome 13)	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	Orthologous group	Sequence	Details
Ghirsutum_Gohir.D06G068266.1 Gohir.D06G068266.1	Low	No	1293	OG0005642		Get ORF Coding potential... Type: noncoding Potential: -0.027 Folding energies... MFEI: -23.534 AMFE: -0.641 GC content %: 36.736
Ghirsutum_Gohir.D06G068266.2 Gohir.D06G068266.2	High	No	1143	OG0005642		Get ORF Coding potential... Type: noncoding Potential: -0.895 Folding energies... MFEI: -22.528 AMFE: -0.618 GC content %: 36.483

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
Ghirsutum_Gohir.D06G068266.1	SwissProt	2021-04-01	Q9CXF4	2.09e-15

Gene models

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