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_AET3Gv20336800 [ AET3Gv20336800]	3D	127841359	127850403	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_AET3Gv20336800.1 AET3Gv20336800.1	Low	No	434	OG0072438		Get ORF Coding potential... Type: noncoding Potential: -0.149 Folding energies... MFEI: -27.051 AMFE: -0.575 GC content %: 47.005
Atauschii_AET3Gv20336800.18 AET3Gv20336800.18	Low	No	564	OG0072439		Get ORF Coding potential... Type: noncoding Potential: -1.283 Folding energies... MFEI: -28.670 AMFE: -0.617 GC content %: 46.454

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_AET3Gv20336800.1	SwissProt	2021-04-01	Q944H5	5.92e-47
Atauschii_AET3Gv20336800.18	SwissProt	2021-04-01	Q944H5	2.34e-9
Atauschii_AET3Gv20336800.18	RepBase (RepeatMasker)	2014-01-31	LTR/Gypsy

Gene models

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