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_HORVU3Hr1G113860 [ HORVU3Hr1G113860]	chr3H	689450760	689453320	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_HORVU3Hr1G113860.4 HORVU3Hr1G113860.4	Low	No	240	OG0005723		Get ORF Coding potential... Type: noncoding Potential: -0.541 Folding energies... MFEI: -30.167 AMFE: -0.557 GC content %: 54.167
Hvulgare_HORVU3Hr1G113860.5 HORVU3Hr1G113860.5	High	No	282	OG0005722		Get ORF Coding potential... Type: noncoding Potential: -0.407 Folding energies... MFEI: -29.610 AMFE: -0.619 GC content %: 47.872

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_HORVU3Hr1G113860.4	SwissProt	2021-04-01	F4I114	1.12e-5

Gene models

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