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_HORVU6Hr1G089890 [ HORVU6Hr1G089890]	chr6H	570820146	570894203	r1	Hordeum vulgare (Phytozome 13)	Coding? No

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_HORVU6Hr1G089890.1 HORVU6Hr1G089890.1	Low	No	706	OG0013232		Get ORF Coding potential... Type: noncoding Potential: -1.004 Folding energies... MFEI: -28.144 AMFE: -0.643 GC content %: 43.768
Hvulgare_HORVU6Hr1G089890.2 HORVU6Hr1G089890.2	High	No	739	OG0013232		Get ORF Coding potential... Type: noncoding Potential: -1.253 Folding energies... MFEI: -24.750 AMFE: -0.610 GC content %: 40.595
Hvulgare_HORVU6Hr1G089890.3 HORVU6Hr1G089890.3	High	No	368	OG0048090		Get ORF Coding potential... Type: noncoding Potential: -1.109 Folding energies... MFEI: -26.332 AMFE: -0.594 GC content %: 44.293

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_HORVU6Hr1G089890.1	SwissProt	2021-04-01	P26520	4.01e-10

Gene models

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