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_AET2Gv20352700 [ AET2Gv20352700]	2D	121553841	121564234	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_AET2Gv20352700.1 AET2Gv20352700.1	High	No	265	OG0070170		Get ORF Coding potential... Type: noncoding Potential: -1.140 Folding energies... MFEI: -28.340 AMFE: -0.406 GC content %: 69.811
Atauschii_AET2Gv20352700.4 AET2Gv20352700.4	Low	Yes	742	OG0006826		Get ORF Coding potential... Type: noncoding Potential: -0.829 Folding energies... MFEI: -31.456 AMFE: -0.661 GC content %: 47.574
Atauschii_AET2Gv20352700.5 AET2Gv20352700.5	High	No	798	OG0006826		Get ORF Coding potential... Type: noncoding Potential: -0.961 Folding energies... MFEI: -30.990 AMFE: -0.654 GC content %: 47.368
Atauschii_AET2Gv20352700.6 AET2Gv20352700.6	High	No	1061	OG0006826		Get ORF Coding potential... Type: noncoding Potential: -0.905 Folding energies... MFEI: -26.532 AMFE: -0.662 GC content %: 40.057
Atauschii_AET2Gv20352700.7 AET2Gv20352700.7	High	No	1094	OG0006826		Get ORF Coding potential... Type: noncoding Potential: -0.913 Folding energies... MFEI: -27.048 AMFE: -0.669 GC content %: 40.402
Atauschii_AET2Gv20352700.8 AET2Gv20352700.8	High	No	222	OG0070171		Get ORF Coding potential... Type: noncoding Potential: -0.777 Folding energies... MFEI: -23.739 AMFE: -0.543 GC content %: 43.694
Atauschii_AET2Gv20352700.9 AET2Gv20352700.9	Low	Yes	613	OG0006826		Get ORF Coding potential... Type: noncoding Potential: -1.179 Folding energies... MFEI: -25.530 AMFE: -0.629 GC content %: 40.620

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_AET2Gv20352700.4	Rfam	14.6	MIR1122	0.0098
Atauschii_AET2Gv20352700.9	Rfam	14.6	MIR1122	0.0081

Gene models

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