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_AET2Gv20359100 [ AET2Gv20359100]	2D	124819542	124826605	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_AET2Gv20359100.2 AET2Gv20359100.2	Low	No	2258	OG0070180		Get ORF Coding potential... Type: coding Potential: 0.153 Folding energies... MFEI: -30.190 AMFE: -0.655 GC content %: 46.058
Atauschii_AET2Gv20359100.3 AET2Gv20359100.3	Low	No	2024	OG0070181		Get ORF Coding potential... Type: noncoding Potential: -1.021 Folding energies... MFEI: -28.241 AMFE: -0.685 GC content %: 41.206
Atauschii_AET2Gv20359100.4 AET2Gv20359100.4	High	No	943	OG0024621		Get ORF Coding potential... Type: noncoding Potential: -0.521 Folding energies... MFEI: -34.115 AMFE: -0.643 GC content %: 53.022

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_AET2Gv20359100.3	RepBase (RepeatMasker)	2014-01-31	DNA/TcMar-Stowaway

Gene models

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