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_AET0Gv20164600 [ AET0Gv20164600]	jcf7190000162989	61269	327590	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_AET0Gv20164600.11 AET0Gv20164600.11	Low	No	1151	OG0015790		Get ORF Coding potential... Type: noncoding Potential: -1.076 Folding energies... MFEI: -34.500 AMFE: -0.630 GC content %: 54.735
Atauschii_AET0Gv20164600.12 AET0Gv20164600.12	High	No	512	OG0015790		Get ORF Coding potential... Type: noncoding Potential: -1.079 Folding energies... MFEI: -32.246 AMFE: -0.625 GC content %: 51.562
Atauschii_AET0Gv20164600.13 AET0Gv20164600.13	Low	No	921	OG0015790		Get ORF Coding potential... Type: noncoding Potential: -0.866 Folding energies... MFEI: -27.405 AMFE: -0.661 GC content %: 41.477
Atauschii_AET0Gv20164600.5 AET0Gv20164600.5	Low	No	295	OG0067671		Get ORF Coding potential... Type: noncoding Potential: -1.143 Folding energies... MFEI: -43.525 AMFE: -0.611 GC content %: 71.186
Atauschii_AET0Gv20164600.7 AET0Gv20164600.7	High	No	499	OG0067672		Get ORF Coding potential... Type: noncoding Potential: -1.261 Folding energies... MFEI: -32.084 AMFE: -0.696 GC content %: 46.092

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_AET0Gv20164600.11	SwissProt	2021-04-01	Q8LD26	1.9e-7
Atauschii_AET0Gv20164600.5	SwissProt	2021-04-01	Q8LD26	1.04e-9
Atauschii_AET0Gv20164600.13	RepBase (RepeatMasker)	2014-01-31	LINE/L1

Gene models

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