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_HORVU3Hr1G054240 [ HORVU3Hr1G054240]	chr3H	401545149	401549791	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_HORVU3Hr1G054240.11 HORVU3Hr1G054240.11	Low	No	814	OG0041183		Get ORF Coding potential... Type: noncoding Potential: -0.282 Folding energies... MFEI: -28.292 AMFE: -0.600 GC content %: 47.174
Hvulgare_HORVU3Hr1G054240.16 HORVU3Hr1G054240.16	High	No	301	OG0041184		Get ORF Coding potential... Type: noncoding Potential: -0.777 Folding energies... MFEI: -26.279 AMFE: -0.565 GC content %: 46.512

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_HORVU3Hr1G054240.11	SwissProt	2021-04-01	Q9MAH1	4.75e-13

Gene models

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