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_AET4Gv20514600 [ AET4Gv20514600]	4D	354525055	354539421	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_AET4Gv20514600.1 AET4Gv20514600.1	High	No	875	OG0025361		Get ORF Coding potential... Type: noncoding Potential: -1.370 Folding energies... MFEI: -24.743 AMFE: -0.660 GC content %: 37.486
Atauschii_AET4Gv20514600.32 AET4Gv20514600.32	Low	Yes	254	OG0075010		Get ORF Coding potential... Type: noncoding Potential: -1.069 Folding energies... MFEI: -23.189 AMFE: -0.453 GC content %: 51.181

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_AET4Gv20514600.32	Rfam	14.6	mir-286	0.0059
Atauschii_AET4Gv20514600.32	RepBase (RepeatMasker)	2014-01-31	LTR/ERV1

Gene models

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