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_AET2Gv20913100 [ AET2Gv20913100]	2D	522889322	523293120	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_AET2Gv20913100.19 AET2Gv20913100.19	Low	No	490	OG0024784		Get ORF Coding potential... Type: noncoding Potential: -0.011 Folding energies... MFEI: -30.714 AMFE: -0.640 GC content %: 47.959
Atauschii_AET2Gv20913100.33 AET2Gv20913100.33	Low	No	476	OG0024784		Get ORF Coding potential... Type: noncoding Potential: -0.110 Folding energies... MFEI: -30.567 AMFE: -0.647 GC content %: 47.269
Atauschii_AET2Gv20913100.37 AET2Gv20913100.37	High	No	296	OG0071164		Get ORF Coding potential... Type: noncoding Potential: -0.956 Folding energies... MFEI: -29.459 AMFE: -0.516 GC content %: 57.095
Atauschii_AET2Gv20913100.48 AET2Gv20913100.48	Low	No	550	OG0071165		Get ORF Coding potential... Type: noncoding Potential: -0.092 Folding energies... MFEI: -33.073 AMFE: -0.577 GC content %: 57.273
Atauschii_AET2Gv20913100.65 AET2Gv20913100.65	Low	No	497	OG0071166		Get ORF Coding potential... Type: noncoding Potential: -1.322 Folding energies... MFEI: -29.256 AMFE: -0.808 GC content %: 36.217

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_AET2Gv20913100.48	SwissProt	2021-04-01	Q8VZU3	9.63e-15
Atauschii_AET2Gv20913100.65	RepBase (RepeatMasker)	2014-01-31	DNA/MULE-MuDR
Atauschii_AET2Gv20913100.19	SwissProt	2021-04-01	Q8S8P0	4.2e-23
Atauschii_AET2Gv20913100.33	SwissProt	2021-04-01	Q8S8P0	1.83e-21

Gene models

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