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_AET0Gv20017400 [ AET0Gv20017400]	jcf7190000000406	59033	60398	v4	Aegilops tauschii (Ensembl Plants 51)	Coding? No

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_AET0Gv20017400.1 AET0Gv20017400.1	High	No	1003	OG0067554		Get ORF Coding potential... Type: noncoding Potential: -0.722 Folding energies... MFEI: -39.292 AMFE: -0.661 GC content %: 59.422
Atauschii_AET0Gv20017400.2 AET0Gv20017400.2	Low	Yes	902	OG0024168		Get ORF Coding potential... Type: noncoding Potential: -0.702 Folding energies... MFEI: -35.876 AMFE: -0.671 GC content %: 53.437
Atauschii_AET0Gv20017400.3 AET0Gv20017400.3	High	No	294	OG0067555		Get ORF Coding potential... Type: noncoding Potential: -0.933 Folding energies... MFEI: -36.803 AMFE: -0.585 GC content %: 62.925
Atauschii_AET0Gv20017400.4 AET0Gv20017400.4	Low	Yes	608	OG0024168		Get ORF Coding potential... Type: noncoding Potential: -1.225 Folding energies... MFEI: -32.023 AMFE: -0.660 GC content %: 48.520

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_AET0Gv20017400.4	Rfam	14.6	MIR1122	1.4e-4
Atauschii_AET0Gv20017400.2	Rfam	14.6	MIR1122	2.1e-4

Gene models

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