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_HORVU6Hr1G064430 [ HORVU6Hr1G064430]	chr6H	436275551	436279451	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_HORVU6Hr1G064430.14 HORVU6Hr1G064430.14	Low	No	780	OG0005981		Get ORF Coding potential... Type: noncoding Potential: -1.066 Folding energies... MFEI: -28.808 AMFE: -0.673 GC content %: 42.821
Hvulgare_HORVU6Hr1G064430.15 HORVU6Hr1G064430.15	High	No	855	OG0005981		Get ORF Coding potential... Type: noncoding Potential: -1.097 Folding energies... MFEI: -27.942 AMFE: -0.664 GC content %: 42.105
Hvulgare_HORVU6Hr1G064430.16 HORVU6Hr1G064430.16	High	No	660	OG0005981		Get ORF Coding potential... Type: noncoding Potential: -1.315 Folding energies... MFEI: -27.000 AMFE: -0.634 GC content %: 42.576

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_HORVU6Hr1G064430.14	SwissProt	2021-04-01	Q5SR56	4.42e-4

Gene models

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