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_HORVU6Hr1G037610 [ HORVU6Hr1G037610]	chr6H	189312796	189321121	r1	Hordeum vulgare (Phytozome 13)	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
Hvulgare_HORVU6Hr1G037610.10 HORVU6Hr1G037610.10	High	No	433	OG0013140		Get ORF Coding potential... Type: noncoding Potential: -0.468 Folding energies... MFEI: -44.827 AMFE: -0.764 GC content %: 58.661
Hvulgare_HORVU6Hr1G037610.12 HORVU6Hr1G037610.12	High	No	421	OG0013140		Get ORF Coding potential... Type: noncoding Potential: -0.915 Folding energies... MFEI: -45.891 AMFE: -0.767 GC content %: 59.857
Hvulgare_HORVU6Hr1G037610.9 HORVU6Hr1G037610.9	Low	No	347	OG0047105		Get ORF Coding potential... Type: noncoding Potential: -0.782 Folding energies... MFEI: -46.254 AMFE: -0.736 GC content %: 62.824

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_HORVU6Hr1G037610.9	SwissProt	2021-04-01	Q5ZLX5	2.44e-4

Gene models

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