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_AET1Gv20646800 [ AET1Gv20646800]	1D	369478516	369481365	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_AET1Gv20646800.1 AET1Gv20646800.1	High	No	239	OG0068812		Get ORF Coding potential... Type: noncoding Potential: -1.214 Folding energies... MFEI: -25.565 AMFE: -0.593 GC content %: 43.096
Atauschii_AET1Gv20646800.3 AET1Gv20646800.3	Low	No	369	OG0068813		Get ORF Coding potential... Type: noncoding Potential: -0.381 Folding energies... MFEI: -39.675 AMFE: -0.628 GC content %: 63.144
Atauschii_AET1Gv20646800.5 AET1Gv20646800.5	High	No	204	OG0068814		Get ORF Coding potential... Type: noncoding Potential: -1.262 Folding energies... MFEI: -19.706 AMFE: -0.410 GC content %: 48.039

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_AET1Gv20646800.3	RepBase (RepeatMasker)	2014-01-31	DNA/CMC-EnSpm

Gene models

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