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_HORVU7Hr1G033430 [ HORVU7Hr1G033430]	chr7H	68707250	68709656	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_HORVU7Hr1G033430.10 HORVU7Hr1G033430.10	Low	No	2037	OG0048734		Get ORF Coding potential... Type: noncoding Potential: -1.063 Folding energies... MFEI: -40.569 AMFE: -0.730 GC content %: 55.572
Hvulgare_HORVU7Hr1G033430.6 HORVU7Hr1G033430.6	Low	No	880	OG0048735		Get ORF Coding potential... Type: noncoding Potential: -0.915 Folding energies... MFEI: -38.511 AMFE: -0.632 GC content %: 60.909

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_HORVU7Hr1G033430.10	SwissProt	2021-04-01	P56101	2.74e-8
Hvulgare_HORVU7Hr1G033430.6	SwissProt	2021-04-01	P56101	7.63e-9
Hvulgare_HORVU7Hr1G033430.6	RepBase (RepeatMasker)	2014-01-31	LTR/ERV1

Gene models

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