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_HORVU1Hr1G055320 [ HORVU1Hr1G055320]	chr1H	405305563	405312023	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_HORVU1Hr1G055320.1 HORVU1Hr1G055320.1	Low	No	1829	OG0003234		Get ORF Coding potential... Type: noncoding Potential: -0.671 Folding energies... MFEI: -38.464 AMFE: -0.714 GC content %: 53.855
Hvulgare_HORVU1Hr1G055320.11 HORVU1Hr1G055320.11	High	No	1624	OG0003234		Get ORF Coding potential... Type: noncoding Potential: -0.722 Folding energies... MFEI: -38.688 AMFE: -0.690 GC content %: 56.096
Hvulgare_HORVU1Hr1G055320.12 HORVU1Hr1G055320.12	High	No	1655	OG0003234		Get ORF Coding potential... Type: noncoding Potential: -0.724 Folding energies... MFEI: -36.876 AMFE: -0.679 GC content %: 54.320
Hvulgare_HORVU1Hr1G055320.13 HORVU1Hr1G055320.13	High	No	3687	OG0005711		Get ORF Coding potential... Type: noncoding Potential: -0.647 Folding energies... MFEI: -31.199 AMFE: -0.690 GC content %: 45.213
Hvulgare_HORVU1Hr1G055320.15 HORVU1Hr1G055320.15	High	No	1493	OG0036641		Get ORF Coding potential... Type: noncoding Potential: -0.741 Folding energies... MFEI: -39.089 AMFE: -0.698 GC content %: 55.995
Hvulgare_HORVU1Hr1G055320.16 HORVU1Hr1G055320.16	High	No	3400	OG0036642		Get ORF Coding potential... Type: noncoding Potential: -0.640 Folding energies... MFEI: -30.968 AMFE: -0.688 GC content %: 45.029
Hvulgare_HORVU1Hr1G055320.17 HORVU1Hr1G055320.17	High	No	1232	OG0036643		Get ORF Coding potential... Type: noncoding Potential: -0.692 Folding energies... MFEI: -39.326 AMFE: -0.669 GC content %: 58.766
Hvulgare_HORVU1Hr1G055320.2 HORVU1Hr1G055320.2	High	No	1858	OG0003234		Get ORF Coding potential... Type: noncoding Potential: -0.673 Folding energies... MFEI: -38.068 AMFE: -0.705 GC content %: 53.983
Hvulgare_HORVU1Hr1G055320.5 HORVU1Hr1G055320.5	High	No	3354	OG0036644		Get ORF Coding potential... Type: noncoding Potential: -0.639 Folding energies... MFEI: -31.601 AMFE: -0.692 GC content %: 45.677
Hvulgare_HORVU1Hr1G055320.6 HORVU1Hr1G055320.6	High	No	3703	OG0005711		Get ORF Coding potential... Type: noncoding Potential: -0.647 Folding energies... MFEI: -31.672 AMFE: -0.693 GC content %: 45.693
Hvulgare_HORVU1Hr1G055320.7 HORVU1Hr1G055320.7	High	No	3715	OG0005711		Get ORF Coding potential... Type: noncoding Potential: -0.647 Folding energies... MFEI: -31.965 AMFE: -0.699 GC content %: 45.707
Hvulgare_HORVU1Hr1G055320.9 HORVU1Hr1G055320.9	Low	No	1725	OG0036645		Get ORF Coding potential... Type: noncoding Potential: -0.992 Folding energies... MFEI: -24.754 AMFE: -0.674 GC content %: 36.754

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_HORVU1Hr1G055320.1	RepBase (RepeatMasker)	2014-01-31	DNA/CMC-EnSpm
Hvulgare_HORVU1Hr1G055320.9	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).