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_AET0Gv20140400 [ AET0Gv20140400]	jcf7190000162585	11034	17581	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_AET0Gv20140400.25 AET0Gv20140400.25	High	No	238	OG0067656		Get ORF Coding potential... Type: noncoding Potential: -0.828 Folding energies... MFEI: -30.672 AMFE: -0.658 GC content %: 46.639
Atauschii_AET0Gv20140400.27 AET0Gv20140400.27	Low	No	812	OG0024193		Get ORF Coding potential... Type: noncoding Potential: -0.442 Folding energies... MFEI: -29.914 AMFE: -0.638 GC content %: 46.921
Atauschii_AET0Gv20140400.28 AET0Gv20140400.28	High	No	743	OG0024193		Get ORF Coding potential... Type: noncoding Potential: -0.721 Folding energies... MFEI: -30.000 AMFE: -0.641 GC content %: 46.837

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_AET0Gv20140400.27	SwissProt	2021-04-01	F4IXE7	2.43e-8

Gene models

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