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_AET3Gv20364600 [ AET3Gv20364600]	3D	143731503	143735144	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_AET3Gv20364600.1 AET3Gv20364600.1	High	No	928	OG0002360		Get ORF Coding potential... Type: noncoding Potential: -0.849 Folding energies... MFEI: -39.720 AMFE: -0.674 GC content %: 58.944
Atauschii_AET3Gv20364600.2 AET3Gv20364600.2	Low	No	1990	OG0002360		Get ORF Coding potential... Type: noncoding Potential: -0.052 Folding energies... MFEI: -32.176 AMFE: -0.669 GC content %: 48.090
Atauschii_AET3Gv20364600.3 AET3Gv20364600.3	Low	No	1776	OG0002360		Get ORF Coding potential... Type: noncoding Potential: -0.037 Folding energies... MFEI: -33.784 AMFE: -0.662 GC content %: 51.014
Atauschii_AET3Gv20364600.5 AET3Gv20364600.5	High	No	1512	OG0002360		Get ORF Coding potential... Type: noncoding Potential: -0.827 Folding energies... MFEI: -26.706 AMFE: -0.649 GC content %: 41.138
Atauschii_AET3Gv20364600.6 AET3Gv20364600.6	High	No	1259	OG0002360		Get ORF Coding potential... Type: noncoding Potential: -1.193 Folding energies... MFEI: -25.592 AMFE: -0.641 GC content %: 39.952

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_AET3Gv20364600.2	SwissProt	2021-04-01	F4HQD4	1.14e-11
Atauschii_AET3Gv20364600.3	SwissProt	2021-04-01	F4HQD4	9.24e-12

Gene models

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