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_AET4Gv20864700 [ AET4Gv20864700]	4D	520157463	520158391	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_AET4Gv20864700.1 AET4Gv20864700.1	High	No	535	OG0075728		Get ORF Coding potential... Type: noncoding Potential: -0.873 Folding energies... MFEI: -27.589 AMFE: -0.579 GC content %: 47.664
Atauschii_AET4Gv20864700.2 AET4Gv20864700.2	High	No	234	OG0075729		Get ORF Coding potential... Type: noncoding Potential: -0.932 Folding energies... MFEI: -24.487 AMFE: -0.597 GC content %: 41.026
Atauschii_AET4Gv20864700.3 AET4Gv20864700.3	Low	No	234	OG0075730		Get ORF Coding potential... Type: noncoding Potential: -0.856 Folding energies... MFEI: -23.419 AMFE: -0.583 GC content %: 40.171
Atauschii_AET4Gv20864700.4 AET4Gv20864700.4	Low	No	301	OG0075731		Get ORF Coding potential... Type: noncoding Potential: -0.579 Folding energies... MFEI: -23.688 AMFE: -0.580 GC content %: 40.864

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_AET4Gv20864700.4	RepBase (RepeatMasker)	2014-01-31	LINE/L1
Atauschii_AET4Gv20864700.3	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).