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
Gmax_Glyma.18G095850 [ Glyma.18G095850]	Gm18	9750344	9756250	A4v1	Glycine max (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
Gmax_Glyma.18G095850.1 Glyma.18G095850.1	Low	No	748	OG0010754		Get ORF Coding potential... Type: noncoding Potential: -1.196 Folding energies... MFEI: -24.024 AMFE: -0.728 GC content %: 33.021
Gmax_Glyma.18G095850.2 Glyma.18G095850.2	Low	No	673	OG0010754		Get ORF Coding potential... Type: noncoding Potential: -0.240 Folding energies... MFEI: -24.146 AMFE: -0.683 GC content %: 35.364
Gmax_Glyma.18G095850.3 Glyma.18G095850.3	High	No	688	OG0010754		Get ORF Coding potential... Type: noncoding Potential: -1.207 Folding energies... MFEI: -23.081 AMFE: -0.709 GC content %: 32.558
Gmax_Glyma.18G095850.4 Glyma.18G095850.4	High	No	615	OG0010754		Get ORF Coding potential... Type: noncoding Potential: -0.989 Folding energies... MFEI: -23.187 AMFE: -0.657 GC content %: 35.285

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
Gmax_Glyma.18G095850.1	SwissProt	2021-04-01	Q93YP9	1.78e-10
Gmax_Glyma.18G095850.2	SwissProt	2021-04-01	Q93YP9	7.72e-12

Gene models

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