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_HORVU2Hr1G090160 [ HORVU2Hr1G090160]	chr2H	642377783	642382390	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_HORVU2Hr1G090160.1 HORVU2Hr1G090160.1	High	No	307	OG0039415		Get ORF Coding potential... Type: noncoding Potential: -1.264 Folding energies... MFEI: -30.945 AMFE: -0.508 GC content %: 60.912
Hvulgare_HORVU2Hr1G090160.7 HORVU2Hr1G090160.7	Low	No	512	OG0039416		Get ORF Coding potential... Type: noncoding Potential: -0.267 Folding energies... MFEI: -33.965 AMFE: -0.677 GC content %: 50.195

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_HORVU2Hr1G090160.7	SwissProt	2021-04-01	A2XVN3	8.26e-19

Gene models

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