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_AET2Gv20305400 [ AET2Gv20305400]	2D	97631497	97634316	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_AET2Gv20305400.13 AET2Gv20305400.13	High	No	299	OG0070076		Get ORF Coding potential... Type: noncoding Potential: -1.434 Folding energies... MFEI: -33.311 AMFE: -0.593 GC content %: 56.187
Atauschii_AET2Gv20305400.5 AET2Gv20305400.5	Low	No	741	OG0002863		Get ORF Coding potential... Type: noncoding Potential: -1.038 Folding energies... MFEI: -24.480 AMFE: -0.540 GC content %: 45.344
Atauschii_AET2Gv20305400.6 AET2Gv20305400.6	Low	No	800	OG0002863		Get ORF Coding potential... Type: noncoding Potential: -1.297 Folding energies... MFEI: -24.950 AMFE: -0.550 GC content %: 45.375
Atauschii_AET2Gv20305400.7 AET2Gv20305400.7	Low	No	814	OG0002863		Get ORF Coding potential... Type: noncoding Potential: -1.299 Folding energies... MFEI: -24.337 AMFE: -0.544 GC content %: 44.717
Atauschii_AET2Gv20305400.8 AET2Gv20305400.8	Low	No	755	OG0002863		Get ORF Coding potential... Type: noncoding Potential: -1.291 Folding energies... MFEI: -24.252 AMFE: -0.543 GC content %: 44.636

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_AET2Gv20305400.7	RepBase (RepeatMasker)	2014-01-31	DNA/CMC-EnSpm
Atauschii_AET2Gv20305400.8	RepBase (RepeatMasker)	2014-01-31	DNA/CMC-EnSpm
Atauschii_AET2Gv20305400.5	RepBase (RepeatMasker)	2014-01-31	DNA/CMC-EnSpm
Atauschii_AET2Gv20305400.6	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).