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
Hvulgare_HORVU5Hr1G096920 [ HORVU5Hr1G096920]	chr5H	602595682	602596431	r1	Hordeum vulgare (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
Hvulgare_HORVU5Hr1G096920.1 HORVU5Hr1G096920.1	Low	No	408	OG0045977		Get ORF Coding potential... Type: noncoding Potential: -0.186 Folding energies... MFEI: -29.461 AMFE: -0.530 GC content %: 55.637
Hvulgare_HORVU5Hr1G096920.2 HORVU5Hr1G096920.2	High	No	304	OG0193017		Get ORF Coding potential... Type: noncoding Potential: -1.189 Folding energies... MFEI: -29.901 AMFE: -0.505 GC content %: 59.211

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
Hvulgare_HORVU5Hr1G096920.1	SwissProt	2021-04-01	Q9LT67	9.54e-15

Gene models

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