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_HORVU5Hr1G069940 [ HORVU5Hr1G069940]	chr5H	526378679	526379398	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_HORVU5Hr1G069940.1 HORVU5Hr1G069940.1	Low	No	225	OG0045465		Get ORF Coding potential... Type: noncoding Potential: -1.126 Folding energies... MFEI: -14.622 AMFE: -0.387 GC content %: 37.778
Hvulgare_HORVU5Hr1G069940.2 HORVU5Hr1G069940.2	High	No	204	OG0045466		Get ORF Coding potential... Type: noncoding Potential: -1.101 Folding energies... MFEI: -15.784 AMFE: -0.424 GC content %: 37.255
Hvulgare_HORVU5Hr1G069940.3 HORVU5Hr1G069940.3	High	No	329	OG0045467		Get ORF Coding potential... Type: noncoding Potential: -0.566 Folding energies... MFEI: -22.371 AMFE: -0.515 GC content %: 43.465

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_HORVU5Hr1G069940.1	SwissProt	2021-04-01	Q9FHE1	7.42e-5

Gene models

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