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_AET4Gv20484700 [ AET4Gv20484700]	4D	331126612	331165936	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_AET4Gv20484700.29 AET4Gv20484700.29	Low	No	995	OG0074955		Get ORF Coding potential... Type: noncoding Potential: -0.959 Folding energies... MFEI: -27.226 AMFE: -0.637 GC content %: 42.714
Atauschii_AET4Gv20484700.30 AET4Gv20484700.30	Low	No	538	OG0074956		Get ORF Coding potential... Type: noncoding Potential: -0.976 Folding energies... MFEI: -26.561 AMFE: -0.579 GC content %: 45.911
Atauschii_AET4Gv20484700.56 AET4Gv20484700.56	High	No	1197	OG0025349		Get ORF Coding potential... Type: noncoding Potential: -1.006 Folding energies... MFEI: -29.006 AMFE: -0.607 GC content %: 47.786
Atauschii_AET4Gv20484700.57 AET4Gv20484700.57	High	No	515	OG0025349		Get ORF Coding potential... Type: noncoding Potential: -0.947 Folding energies... MFEI: -25.650 AMFE: -0.587 GC content %: 43.689

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_AET4Gv20484700.29	SwissProt	2021-04-01	Q8WWQ0	3.23e-7
Atauschii_AET4Gv20484700.30	RepBase (RepeatMasker)	2014-01-31	LINE/RTE-BovB

Gene models

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