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_HORVU6Hr1G073260 [ HORVU6Hr1G073260]	chr6H	507700293	507702923	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_HORVU6Hr1G073260.1 HORVU6Hr1G073260.1	Low	No	531	OG0047706		Get ORF Coding potential... Type: noncoding Potential: -0.685 Folding energies... MFEI: -37.213 AMFE: -0.599 GC content %: 62.147
Hvulgare_HORVU6Hr1G073260.5 HORVU6Hr1G073260.5	High	No	916	OG0047707		Get ORF Coding potential... Type: noncoding Potential: -0.479 Folding energies... MFEI: -37.784 AMFE: -0.652 GC content %: 57.969
Hvulgare_HORVU6Hr1G073260.6 HORVU6Hr1G073260.6	High	No	692	OG0047708		Get ORF Coding potential... Type: noncoding Potential: -0.869 Folding energies... MFEI: -27.890 AMFE: -0.588 GC content %: 47.399

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_HORVU6Hr1G073260.1	SwissProt	2021-04-01	Q6NLC8	2.08e-10

Gene models

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