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_AET1Gv20054200 [ AET1Gv20054200]	1D	11774486	11776783	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_AET1Gv20054200.3 AET1Gv20054200.3	Low	No	788	OG0067761		Get ORF Coding potential... Type: noncoding Potential: -0.687 Folding energies... MFEI: -31.853 AMFE: -0.647 GC content %: 49.239
Atauschii_AET1Gv20054200.7 AET1Gv20054200.7	Low	No	337	OG0024213		Get ORF Coding potential... Type: noncoding Potential: -0.895 Folding energies... MFEI: -34.154 AMFE: -0.593 GC content %: 57.567
Atauschii_AET1Gv20054200.8 AET1Gv20054200.8	High	No	453	OG0024213		Get ORF Coding potential... Type: noncoding Potential: -0.865 Folding energies... MFEI: -31.589 AMFE: -0.599 GC content %: 52.759

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_AET1Gv20054200.3	SwissProt	2021-04-01	B2IK67	2.76e-10
Atauschii_AET1Gv20054200.7	SwissProt	2021-04-01	A6U864	1.46e-5

Gene models

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