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
Lsativa_Lsat_1_v5_gn_8_74080 [ Lsat_1_v5_gn_8_74080]	Lsat_1_v8_lg_8	114510476	114510899	v5	Lactuca sativa (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
Lsativa_Lsat_1_v5_gn_8_74080.1 Lsat_1_v5_gn_8_74080.1	High	No	285	[1]		Get ORF Coding potential... Type: noncoding Potential: -0.579 Folding energies... MFEI: -21.860 AMFE: -0.572 GC content %: 38.246
Lsativa_Lsat_1_v5_gn_8_74080.3 Lsat_1_v5_gn_8_74080.3	Low	No	301	[2]		Get ORF Coding potential... Type: noncoding Potential: -0.883 Folding energies... MFEI: -21.429 AMFE: -0.542 GC content %: 39.535

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
Lsativa_Lsat_1_v5_gn_8_74080.3	SwissProt	2021-04-01	Q9NG98	4.77e-4

Gene models

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