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_AET2Gv20801100 [ AET2Gv20801100]	2D	454020872	454025246	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_AET2Gv20801100.1 AET2Gv20801100.1	Low	No	1067	OG0009823		Get ORF Coding potential... Type: noncoding Potential: -0.245 Folding energies... MFEI: -33.177 AMFE: -0.653 GC content %: 50.797
Atauschii_AET2Gv20801100.2 AET2Gv20801100.2	Low	No	1233	OG0009823		Get ORF Coding potential... Type: noncoding Potential: -0.222 Folding energies... MFEI: -29.935 AMFE: -0.635 GC content %: 47.121
Atauschii_AET2Gv20801100.4 AET2Gv20801100.4	Low	No	510	OG0009823		Get ORF Coding potential... Type: noncoding Potential: -0.127 Folding energies... MFEI: -32.510 AMFE: -0.605 GC content %: 53.725
Atauschii_AET2Gv20801100.6 AET2Gv20801100.6	High	No	2104	OG0009823		Get ORF Coding potential... Type: noncoding Potential: -1.081 Folding energies... MFEI: -26.112 AMFE: -0.685 GC content %: 38.118
Atauschii_AET2Gv20801100.7 AET2Gv20801100.7	High	No	750	OG0070938		Get ORF Coding potential... Type: noncoding Potential: -0.922 Folding energies... MFEI: -33.320 AMFE: -0.602 GC content %: 55.333

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_AET2Gv20801100.1	SwissProt	2021-04-01	Q7X7H9	4.21e-16
Atauschii_AET2Gv20801100.2	SwissProt	2021-04-01	Q7X7H9	4.55e-14
Atauschii_AET2Gv20801100.4	SwissProt	2021-04-01	Q7X7H9	1.86e-17

Gene models

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