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_AET3Gv20750000 [ AET3Gv20750000]	3D	443466903	443589970	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_AET3Gv20750000.1 AET3Gv20750000.1	Low	No	690	OG0025084		Get ORF Coding potential... Type: noncoding Potential: -0.943 Folding energies... MFEI: -25.623 AMFE: -0.605 GC content %: 42.319
Atauschii_AET3Gv20750000.2 AET3Gv20750000.2	Low	No	549	OG0073245		Get ORF Coding potential... Type: noncoding Potential: -0.844 Folding energies... MFEI: -26.521 AMFE: -0.604 GC content %: 43.898
Atauschii_AET3Gv20750000.3 AET3Gv20750000.3	High	No	699	OG0025085		Get ORF Coding potential... Type: noncoding Potential: -0.892 Folding energies... MFEI: -26.581 AMFE: -0.652 GC content %: 40.773

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_AET3Gv20750000.1	SwissProt	2021-04-01	Q40227	1.43e-4
Atauschii_AET3Gv20750000.2	SwissProt	2021-04-01	Q40227	8.51e-5

Gene models

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