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_AET1Gv20053700 [ AET1Gv20053700]	1D	11751097	11848395	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_AET1Gv20053700.1 AET1Gv20053700.1	Low	No	544	OG0024212		Get ORF Coding potential... Type: noncoding Potential: -1.236 Folding energies... MFEI: -25.680 AMFE: -0.589 GC content %: 43.566
Atauschii_AET1Gv20053700.2 AET1Gv20053700.2	High	No	497	OG0024212		Get ORF Coding potential... Type: noncoding Potential: -1.052 Folding energies... MFEI: -24.064 AMFE: -0.592 GC content %: 40.644
Atauschii_AET1Gv20053700.25 AET1Gv20053700.25	High	No	681	OG0067759		Get ORF Coding potential... Type: noncoding Potential: -0.215 Folding energies... MFEI: -31.454 AMFE: -0.651 GC content %: 48.311

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_AET1Gv20053700.1	SwissProt	2021-04-01	Q9RB36	2.5e-8

Gene models

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