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_AET3Gv20186900 [ AET3Gv20186900]	3D	45529374	45534614	v4	Aegilops tauschii (Ensembl Plants 51)	Coding? No

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_AET3Gv20186900.1 AET3Gv20186900.1	High	No	1834	OG0016144		Get ORF Coding potential... Type: noncoding Potential: -1.152 Folding energies... MFEI: -29.095 AMFE: -0.639 GC content %: 45.529
Atauschii_AET3Gv20186900.2 AET3Gv20186900.2	High	No	1603	OG0016144		Get ORF Coding potential... Type: noncoding Potential: -1.161 Folding energies... MFEI: -32.052 AMFE: -0.663 GC content %: 48.347
Atauschii_AET3Gv20186900.3 AET3Gv20186900.3	High	No	1118	OG0016144		Get ORF Coding potential... Type: noncoding Potential: -1.067 Folding energies... MFEI: -31.127 AMFE: -0.642 GC content %: 48.479
Atauschii_AET3Gv20186900.4 AET3Gv20186900.4	High	No	2339	OG0024932		Get ORF Coding potential... Type: noncoding Potential: -1.197 Folding energies... MFEI: -27.999 AMFE: -0.652 GC content %: 42.924
Atauschii_AET3Gv20186900.5 AET3Gv20186900.5	High	No	2102	OG0024932		Get ORF Coding potential... Type: noncoding Potential: -1.171 Folding energies... MFEI: -30.338 AMFE: -0.667 GC content %: 45.480
Atauschii_AET3Gv20186900.6 AET3Gv20186900.6	High	No	1340	OG0000158		Get ORF Coding potential... Type: noncoding Potential: -1.147 Folding energies... MFEI: -27.075 AMFE: -0.672 GC content %: 40.299
Atauschii_AET3Gv20186900.7 AET3Gv20186900.7	High	No	594	OG0072123		Get ORF Coding potential... Type: noncoding Potential: -1.087 Folding energies... MFEI: -35.875 AMFE: -0.644 GC content %: 55.724
Atauschii_AET3Gv20186900.8 AET3Gv20186900.8	Low	No	663	OG0072124		Get ORF Coding potential... Type: noncoding Potential: -1.099 Folding energies... MFEI: -31.146 AMFE: -0.631 GC content %: 49.321

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_AET3Gv20186900.8	RepBase (RepeatMasker)	2014-01-31	LTR/Gypsy

Gene models

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