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_AET2Gv20709600 [ AET2Gv20709600]	2D	397522124	397546915	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_AET2Gv20709600.15 AET2Gv20709600.15	Low	No	460	OG0024715		Get ORF Coding potential... Type: noncoding Potential: -1.081 Folding energies... MFEI: -28.696 AMFE: -0.555 GC content %: 51.739
Atauschii_AET2Gv20709600.20 AET2Gv20709600.20	Low	No	445	OG0024715		Get ORF Coding potential... Type: noncoding Potential: -1.055 Folding energies... MFEI: -33.191 AMFE: -0.603 GC content %: 55.056
Atauschii_AET2Gv20709600.25 AET2Gv20709600.25	Low	No	575	OG0070747		Get ORF Coding potential... Type: noncoding Potential: -0.168 Folding energies... MFEI: -28.922 AMFE: -0.596 GC content %: 48.522
Atauschii_AET2Gv20709600.5 AET2Gv20709600.5	High	No	439	OG0070748		Get ORF Coding potential... Type: noncoding Potential: -1.241 Folding energies... MFEI: -21.503 AMFE: -0.609 GC content %: 35.308
Atauschii_AET2Gv20709600.7 AET2Gv20709600.7	High	No	680	OG0024716		Get ORF Coding potential... Type: noncoding Potential: -1.175 Folding energies... MFEI: -23.544 AMFE: -0.595 GC content %: 39.559
Atauschii_AET2Gv20709600.9 AET2Gv20709600.9	High	No	1186	OG0024716		Get ORF Coding potential... Type: noncoding Potential: -1.306 Folding energies... MFEI: -22.403 AMFE: -0.569 GC content %: 39.376

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_AET2Gv20709600.15	SwissProt	2021-04-01	O80580	3.29e-10
Atauschii_AET2Gv20709600.20	SwissProt	2021-04-01	O80580	9.95e-13
Atauschii_AET2Gv20709600.25	SwissProt	2021-04-01	O49621	1.1e-12

Gene models

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