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_AET3Gv20038100 [ AET3Gv20038100]	3D	6381875	6385887	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_AET3Gv20038100.2 AET3Gv20038100.2	High	No	519	OG0071897		Get ORF Coding potential... Type: noncoding Potential: -0.245 Folding energies... MFEI: -33.314 AMFE: -0.622 GC content %: 53.565
Atauschii_AET3Gv20038100.3 AET3Gv20038100.3	Low	No	1741	OG0071898		Get ORF Coding potential... Type: noncoding Potential: -0.452 Folding energies... MFEI: -28.926 AMFE: -0.678 GC content %: 42.677
Atauschii_AET3Gv20038100.6 AET3Gv20038100.6	Low	No	500	OG0024898		Get ORF Coding potential... Type: coding Potential: 0.041 Folding energies... MFEI: -33.280 AMFE: -0.628 GC content %: 53.000
Atauschii_AET3Gv20038100.7 AET3Gv20038100.7	High	No	316	OG0071899		Get ORF Coding potential... Type: noncoding Potential: -0.164 Folding energies... MFEI: -31.614 AMFE: -0.574 GC content %: 55.063
Atauschii_AET3Gv20038100.8 AET3Gv20038100.8	High	No	581	OG0071900		Get ORF Coding potential... Type: noncoding Potential: -0.065 Folding energies... MFEI: -26.988 AMFE: -0.592 GC content %: 45.611
Atauschii_AET3Gv20038100.9 AET3Gv20038100.9	High	No	423	OG0071901		Get ORF Coding potential... Type: noncoding Potential: -0.311 Folding energies... MFEI: -25.343 AMFE: -0.570 GC content %: 44.444

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_AET3Gv20038100.3	RepBase (RepeatMasker)	2014-01-31	DNA/CMC-EnSpm

Gene models

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