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_HORVU2Hr1G001370 [ HORVU2Hr1G001370]	chr2H	2898413	2901027	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_HORVU2Hr1G001370.19 HORVU2Hr1G001370.19	High	No	606	OG0037490		Get ORF Coding potential... Type: noncoding Potential: -0.473 Folding energies... MFEI: -28.581 AMFE: -0.587 GC content %: 48.680
Hvulgare_HORVU2Hr1G001370.20 HORVU2Hr1G001370.20	Low	No	710	OG0037491		Get ORF Coding potential... Type: noncoding Potential: -0.897 Folding energies... MFEI: -29.958 AMFE: -0.631 GC content %: 47.465

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_HORVU2Hr1G001370.20	SwissProt	2021-04-01	O48686	4.95e-10

Gene models

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