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_AET4Gv20696800 [ AET4Gv20696800]	4D	462244610	462248423	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_AET4Gv20696800.2 AET4Gv20696800.2	Low	No	2045	OG0002924		Get ORF Coding potential... Type: noncoding Potential: -0.309 Folding energies... MFEI: -32.875 AMFE: -0.596 GC content %: 55.159
Atauschii_AET4Gv20696800.3 AET4Gv20696800.3	High	No	370	OG0075362		Get ORF Coding potential... Type: noncoding Potential: -0.114 Folding energies... MFEI: -36.865 AMFE: -0.571 GC content %: 64.595
Atauschii_AET4Gv20696800.4 AET4Gv20696800.4	High	No	354	OG0025413		Get ORF Coding potential... Type: noncoding Potential: -0.096 Folding energies... MFEI: -38.051 AMFE: -0.578 GC content %: 65.819
Atauschii_AET4Gv20696800.5 AET4Gv20696800.5	High	No	353	OG0025413		Get ORF Coding potential... Type: noncoding Potential: -0.095 Folding energies... MFEI: -38.045 AMFE: -0.574 GC content %: 66.289
Atauschii_AET4Gv20696800.6 AET4Gv20696800.6	High	No	374	OG0075363		Get ORF Coding potential... Type: noncoding Potential: -0.116 Folding energies... MFEI: -35.455 AMFE: -0.550 GC content %: 64.439

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_AET4Gv20696800.2	RepBase (RepeatMasker)	2014-01-31	LTR/Copia

Gene models

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