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_HORVU0Hr1G001520 [ HORVU0Hr1G001520]	chrUn	7572480	7573130	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_HORVU0Hr1G001520.2 HORVU0Hr1G001520.2	Low	No	285	OG0035167		Get ORF Coding potential... Type: noncoding Potential: -1.317 Folding energies... MFEI: -26.491 AMFE: -0.629 GC content %: 42.105
Hvulgare_HORVU0Hr1G001520.3 HORVU0Hr1G001520.3	Low	No	255	OG0035168		Get ORF Coding potential... Type: noncoding Potential: -1.313 Folding energies... MFEI: -24.118 AMFE: -0.691 GC content %: 34.902

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_HORVU0Hr1G001520.3	SwissProt	2021-04-01	P0C2F6	4.45e-4
Hvulgare_HORVU0Hr1G001520.2	RepBase (RepeatMasker)	2014-01-31	LINE/L1
Hvulgare_HORVU0Hr1G001520.3	RepBase (RepeatMasker)	2014-01-31	LINE/L1

Gene models

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