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_HORVU2Hr1G090340 [ HORVU2Hr1G090340]	chr2H	643534875	643544155	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_HORVU2Hr1G090340.2 HORVU2Hr1G090340.2	High	No	1265	OG0039419		Get ORF Coding potential... Type: noncoding Potential: -0.890 Folding energies... MFEI: -27.209 AMFE: -0.645 GC content %: 42.213
Hvulgare_HORVU2Hr1G090340.6 HORVU2Hr1G090340.6	Low	No	1069	OG0004685		Get ORF Coding potential... Type: noncoding Potential: -0.407 Folding energies... MFEI: -34.331 AMFE: -0.660 GC content %: 52.011

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_HORVU2Hr1G090340.6	SwissProt	2021-04-01	Q8BJ56	2.96e-8

Gene models

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