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_HORVU3Hr1G087780 [ HORVU3Hr1G087780]	chr3H	622696442	622700950	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_HORVU3Hr1G087780.19 HORVU3Hr1G087780.19	High	No	1186	OG0012648		Get ORF Coding potential... Type: noncoding Potential: -0.653 Folding energies... MFEI: -25.422 AMFE: -0.651 GC content %: 39.039
Hvulgare_HORVU3Hr1G087780.20 HORVU3Hr1G087780.20	High	No	789	OG0012648		Get ORF Coding potential... Type: noncoding Potential: -1.089 Folding energies... MFEI: -22.928 AMFE: -0.597 GC content %: 38.403
Hvulgare_HORVU3Hr1G087780.4 HORVU3Hr1G087780.4	Low	No	566	OG0041948		Get ORF Coding potential... Type: noncoding Potential: -0.610 Folding energies... MFEI: -26.042 AMFE: -0.540 GC content %: 48.233

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_HORVU3Hr1G087780.4	SwissProt	2021-04-01	Q15649	1.59e-7

Gene models

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