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_HORVU3Hr1G089910 [ HORVU3Hr1G089910]	chr3H	630296200	630298586	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_HORVU3Hr1G089910.1 HORVU3Hr1G089910.1	High	No	611	OG0041983		Get ORF Coding potential... Type: noncoding Potential: -0.862 Folding energies... MFEI: -34.632 AMFE: -0.581 GC content %: 59.574
Hvulgare_HORVU3Hr1G089910.15 HORVU3Hr1G089910.15	High	No	606	OG0012653		Get ORF Coding potential... Type: noncoding Potential: -0.961 Folding energies... MFEI: -38.861 AMFE: -0.658 GC content %: 59.076
Hvulgare_HORVU3Hr1G089910.4 HORVU3Hr1G089910.4	High	No	1025	OG0041984		Get ORF Coding potential... Type: noncoding Potential: -1.086 Folding energies... MFEI: -34.234 AMFE: -0.645 GC content %: 53.073
Hvulgare_HORVU3Hr1G089910.5 HORVU3Hr1G089910.5	High	No	935	OG0041985		Get ORF Coding potential... Type: noncoding Potential: -0.884 Folding energies... MFEI: -33.048 AMFE: -0.605 GC content %: 54.652
Hvulgare_HORVU3Hr1G089910.7 HORVU3Hr1G089910.7	Low	No	1315	OG0041986		Get ORF Coding potential... Type: noncoding Potential: -0.308 Folding energies... MFEI: -34.608 AMFE: -0.637 GC content %: 54.373
Hvulgare_HORVU3Hr1G089910.9 HORVU3Hr1G089910.9	Low	No	772	OG0012653		Get ORF Coding potential... Type: noncoding Potential: -0.602 Folding energies... MFEI: -36.619 AMFE: -0.645 GC content %: 56.736

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_HORVU3Hr1G089910.7	SwissProt	2021-04-01	B1XL18	1.12e-4
Hvulgare_HORVU3Hr1G089910.9	SwissProt	2021-04-01	B1XL18	9.08e-6

Gene models

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