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_HORVU7Hr1G011300 [ HORVU7Hr1G011300]	chr7H	15921767	15924649	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_HORVU7Hr1G011300.1 HORVU7Hr1G011300.1	Low	No	1001	OG0048342		Get ORF Coding potential... Type: noncoding Potential: -0.965 Folding energies... MFEI: -27.403 AMFE: -0.638 GC content %: 42.957
Hvulgare_HORVU7Hr1G011300.2 HORVU7Hr1G011300.2	High	No	1251	OG0001929		Get ORF Coding potential... Type: noncoding Potential: -0.113 Folding energies... MFEI: -31.287 AMFE: -0.652 GC content %: 47.962
Hvulgare_HORVU7Hr1G011300.3 HORVU7Hr1G011300.3	High	No	1055	OG0001929		Get ORF Coding potential... Type: noncoding Potential: -0.519 Folding energies... MFEI: -30.929 AMFE: -0.640 GC content %: 48.341
Hvulgare_HORVU7Hr1G011300.4 HORVU7Hr1G011300.4	High	No	1016	OG0001929		Get ORF Coding potential... Type: noncoding Potential: -0.278 Folding energies... MFEI: -31.289 AMFE: -0.655 GC content %: 47.736
Hvulgare_HORVU7Hr1G011300.5 HORVU7Hr1G011300.5	High	No	1149	OG0004831		Get ORF Coding potential... Type: noncoding Potential: -0.574 Folding energies... MFEI: -32.463 AMFE: -0.653 GC content %: 49.695
Hvulgare_HORVU7Hr1G011300.6 HORVU7Hr1G011300.6	High	No	401	OG0193205		Get ORF Coding potential... Type: noncoding Potential: -1.172 Folding energies... MFEI: -27.032 AMFE: -0.596 GC content %: 45.387
Hvulgare_HORVU7Hr1G011300.7 HORVU7Hr1G011300.7	High	No	256	OG0048343		Get ORF Coding potential... Type: noncoding Potential: -0.961 Folding energies... MFEI: -29.219 AMFE: -0.445 GC content %: 65.625

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_HORVU7Hr1G011300.1	RepBase (RepeatMasker)	2014-01-31	LTR/Copia

Gene models

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