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_AET1Gv20569600 [ AET1Gv20569600]	1D	325592768	325601431	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_AET1Gv20569600.32 AET1Gv20569600.32	High	No	965	OG0002845		Get ORF Coding potential... Type: noncoding Potential: -0.618 Folding energies... MFEI: -27.150 AMFE: -0.601 GC content %: 45.181
Atauschii_AET1Gv20569600.33 AET1Gv20569600.33	Low	No	527	OG0002845		Get ORF Coding potential... Type: noncoding Potential: -1.066 Folding energies... MFEI: -20.436 AMFE: -0.510 GC content %: 40.038
Atauschii_AET1Gv20569600.9 AET1Gv20569600.9	High	No	483	OG0068650		Get ORF Coding potential... Type: noncoding Potential: -1.201 Folding energies... MFEI: -23.251 AMFE: -0.553 GC content %: 42.029

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_AET1Gv20569600.33	RepBase (RepeatMasker)	2014-01-31	DNA/PIF-Harbinger

Gene models

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