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_AET3Gv20533100 [ AET3Gv20533100]	3D	304888573	304890662	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_AET3Gv20533100.2 AET3Gv20533100.2	Low	No	287	OG0006887		Get ORF Coding potential... Type: noncoding Potential: -1.069 Folding energies... MFEI: -23.763 AMFE: -0.609 GC content %: 39.024
Atauschii_AET3Gv20533100.3 AET3Gv20533100.3	Low	No	259	OG0006887		Get ORF Coding potential... Type: noncoding Potential: -1.128 Folding energies... MFEI: -23.012 AMFE: -0.596 GC content %: 38.610
Atauschii_AET3Gv20533100.4 AET3Gv20533100.4	Low	No	240	OG0006887		Get ORF Coding potential... Type: noncoding Potential: -1.338 Folding energies... MFEI: -21.958 AMFE: -0.555 GC content %: 39.583
Atauschii_AET3Gv20533100.5 AET3Gv20533100.5	Low	No	270	OG0006887		Get ORF Coding potential... Type: noncoding Potential: -1.137 Folding energies... MFEI: -23.630 AMFE: -0.596 GC content %: 39.630
Atauschii_AET3Gv20533100.6 AET3Gv20533100.6	Low	No	467	OG0072805		Get ORF Coding potential... Type: noncoding Potential: -1.236 Folding energies... MFEI: -32.612 AMFE: -0.617 GC content %: 52.891

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_AET3Gv20533100.5	SwissProt	2021-04-01	A6ZSH0	6.45e-10
Atauschii_AET3Gv20533100.6	SwissProt	2021-04-01	A6ZSH0	2.59e-8
Atauschii_AET3Gv20533100.2	SwissProt	2021-04-01	A6ZSH0	4.42e-9
Atauschii_AET3Gv20533100.3	SwissProt	2021-04-01	A6ZSH0	3.02e-9
Atauschii_AET3Gv20533100.4	SwissProt	2021-04-01	A6ZSH0	5.69e-6

Gene models

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