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
Atauschii_AET6Gv20366700 [ AET6Gv20366700]	6D	121867937	121874128	v4	Aegilops tauschii (Ensembl Plants 51)	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
Atauschii_AET6Gv20366700.1 AET6Gv20366700.1	Low	No	1609	OG0001319		Get ORF Coding potential... Type: noncoding Potential: -1.142 Folding energies... MFEI: -34.580 AMFE: -0.646 GC content %: 53.511
Atauschii_AET6Gv20366700.10 AET6Gv20366700.10	High	No	1502	OG0001319		Get ORF Coding potential... Type: noncoding Potential: -1.135 Folding energies... MFEI: -33.941 AMFE: -0.660 GC content %: 51.398
Atauschii_AET6Gv20366700.18 AET6Gv20366700.18	High	No	767	OG0001319		Get ORF Coding potential... Type: noncoding Potential: -1.165 Folding energies... MFEI: -27.640 AMFE: -0.606 GC content %: 45.632
Atauschii_AET6Gv20366700.19 AET6Gv20366700.19	High	No	1249	OG0001319		Get ORF Coding potential... Type: noncoding Potential: -1.196 Folding energies... MFEI: -25.717 AMFE: -0.617 GC content %: 41.713
Atauschii_AET6Gv20366700.2 AET6Gv20366700.2	Low	No	1555	OG0001319		Get ORF Coding potential... Type: noncoding Potential: -1.138 Folding energies... MFEI: -34.958 AMFE: -0.641 GC content %: 54.534
Atauschii_AET6Gv20366700.3 AET6Gv20366700.3	Low	No	1449	OG0001319		Get ORF Coding potential... Type: noncoding Potential: -1.131 Folding energies... MFEI: -36.128 AMFE: -0.648 GC content %: 55.763
Atauschii_AET6Gv20366700.4 AET6Gv20366700.4	Low	No	722	OG0001319		Get ORF Coding potential... Type: noncoding Potential: -1.346 Folding energies... MFEI: -34.875 AMFE: -0.616 GC content %: 56.648
Atauschii_AET6Gv20366700.5 AET6Gv20366700.5	High	No	1275	OG0001319		Get ORF Coding potential... Type: noncoding Potential: -1.115 Folding energies... MFEI: -36.298 AMFE: -0.654 GC content %: 55.529
Atauschii_AET6Gv20366700.6 AET6Gv20366700.6	High	No	1338	OG0001319		Get ORF Coding potential... Type: noncoding Potential: -1.121 Folding energies... MFEI: -35.060 AMFE: -0.653 GC content %: 53.662
Atauschii_AET6Gv20366700.7 AET6Gv20366700.7	High	No	1420	OG0001319		Get ORF Coding potential... Type: noncoding Potential: -1.128 Folding energies... MFEI: -34.775 AMFE: -0.657 GC content %: 52.958
Atauschii_AET6Gv20366700.8 AET6Gv20366700.8	High	No	1509	OG0001319		Get ORF Coding potential... Type: noncoding Potential: -1.209 Folding energies... MFEI: -31.869 AMFE: -0.668 GC content %: 47.714
Atauschii_AET6Gv20366700.9 AET6Gv20366700.9	High	No	1391	OG0001319		Get ORF Coding potential... Type: noncoding Potential: -1.126 Folding energies... MFEI: -34.349 AMFE: -0.655 GC content %: 52.480

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
Atauschii_AET6Gv20366700.1	SwissProt	2021-04-01	O23087	2.12e-4
Atauschii_AET6Gv20366700.2	SwissProt	2021-04-01	O23087	2.01e-4
Atauschii_AET6Gv20366700.3	SwissProt	2021-04-01	O23087	1.79e-4
Atauschii_AET6Gv20366700.4	SwissProt	2021-04-01	O23087	2.59e-4

Gene models

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