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
Graimondii_B456_001G025800 [ B456_001G025800]	1	2395051	2396630	v6	Gossypium raimondii (Ensembl Plants 51)	Coding? Yes

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
Graimondii_KJB06744 KJB06744	High	No	858	OG0178495		Get ORF Coding potential... Type: noncoding Potential: -0.922 Folding energies... MFEI: -25.000 AMFE: -0.646 GC content %: 38.695
Graimondii_KJB06745 KJB06745	Low	No	264	OG0011374		Get ORF Coding potential... Type: noncoding Potential: -0.399 Folding energies... MFEI: -29.091 AMFE: -0.619 GC content %: 46.970

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_KJB06745	SwissProt	2021-04-01	Q02921	3.28e-9

Gene models

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