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_AET5Gv20516300 [ AET5Gv20516300]	5D	334135618	334140577	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_AET5Gv20516300.1 AET5Gv20516300.1	Low	No	3107	OG0006997		Get ORF Coding potential... Type: noncoding Potential: -0.983 Folding energies... MFEI: -27.509 AMFE: -0.691 GC content %: 39.813
Atauschii_AET5Gv20516300.2 AET5Gv20516300.2	High	No	951	OG0006997		Get ORF Coding potential... Type: noncoding Potential: -1.255 Folding energies... MFEI: -24.837 AMFE: -0.612 GC content %: 40.589
Atauschii_AET5Gv20516300.3 AET5Gv20516300.3	Low	No	1243	OG0006997		Get ORF Coding potential... Type: noncoding Potential: -0.653 Folding energies... MFEI: -31.480 AMFE: -0.676 GC content %: 46.581
Atauschii_AET5Gv20516300.4 AET5Gv20516300.4	Low	No	1125	OG0006997		Get ORF Coding potential... Type: noncoding Potential: -0.630 Folding energies... MFEI: -31.396 AMFE: -0.660 GC content %: 47.556
Atauschii_AET5Gv20516300.7 AET5Gv20516300.7	High	No	393	OG0025604		Get ORF Coding potential... Type: noncoding Potential: -1.033 Folding energies... MFEI: -37.964 AMFE: -0.594 GC content %: 63.868
Atauschii_AET5Gv20516300.8 AET5Gv20516300.8	High	No	363	OG0025604		Get ORF Coding potential... Type: noncoding Potential: -1.010 Folding energies... MFEI: -38.485 AMFE: -0.597 GC content %: 64.463

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_AET5Gv20516300.3	RepBase (RepeatMasker)	2014-01-31	DNA/CMC-EnSpm
Atauschii_AET5Gv20516300.4	RepBase (RepeatMasker)	2014-01-31	DNA/CMC-EnSpm
Atauschii_AET5Gv20516300.1	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).