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_AET3Gv20890900 [ AET3Gv20890900]	3D	516571040	516573497	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_AET3Gv20890900.10 AET3Gv20890900.10	High	No	534	OG0006910		Get ORF Coding potential... Type: noncoding Potential: -0.835 Folding energies... MFEI: -36.217 AMFE: -0.626 GC content %: 57.865
Atauschii_AET3Gv20890900.14 AET3Gv20890900.14	High	No	213	OG0006910		Get ORF Coding potential... Type: noncoding Potential: -0.799 Folding energies... MFEI: -32.207 AMFE: -0.553 GC content %: 58.216
Atauschii_AET3Gv20890900.16 AET3Gv20890900.16	High	No	816	OG0006910		Get ORF Coding potential... Type: noncoding Potential: -0.487 Folding energies... MFEI: -29.551 AMFE: -0.604 GC content %: 48.897
Atauschii_AET3Gv20890900.2 AET3Gv20890900.2	High	No	361	OG0006910		Get ORF Coding potential... Type: noncoding Potential: -1.202 Folding energies... MFEI: -34.321 AMFE: -0.568 GC content %: 60.388
Atauschii_AET3Gv20890900.3 AET3Gv20890900.3	Low	No	1034	OG0006910		Get ORF Coding potential... Type: noncoding Potential: -0.038 Folding energies... MFEI: -37.244 AMFE: -0.661 GC content %: 56.383
Atauschii_AET3Gv20890900.9 AET3Gv20890900.9	High	No	568	OG0073516		Get ORF Coding potential... Type: noncoding Potential: -0.832 Folding energies... MFEI: -33.257 AMFE: -0.596 GC content %: 55.810

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_AET3Gv20890900.3	SwissProt	2021-04-01	B1XL18	8.8e-4

Gene models

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