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_HORVU4Hr1G030840 [ HORVU4Hr1G030840]	chr4H	201457066	201457509	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_HORVU4Hr1G030840.1 HORVU4Hr1G030840.1	Low	No	275	OG0043157		Get ORF Coding potential... Type: noncoding Potential: -0.987 Folding energies... MFEI: -44.727 AMFE: -0.647 GC content %: 69.091
Hvulgare_HORVU4Hr1G030840.2 HORVU4Hr1G030840.2	High	No	260	OG0192803		Get ORF Coding potential... Type: noncoding Potential: -0.972 Folding energies... MFEI: -42.538 AMFE: -0.647 GC content %: 65.769

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_HORVU4Hr1G030840.1	SwissProt	2021-04-01	Q6NNL9	3.96e-4

Gene models

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