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_AET7Gv20166900 [ AET7Gv20166900]	7D	35366748	35369488	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_AET7Gv20166900.12 AET7Gv20166900.12	High	No	332	OG0079953		Get ORF Coding potential... Type: noncoding Potential: -1.360 Folding energies... MFEI: -23.274 AMFE: -0.415 GC content %: 56.024
Atauschii_AET7Gv20166900.5 AET7Gv20166900.5	Low	No	502	OG0002863		Get ORF Coding potential... Type: noncoding Potential: -0.793 Folding energies... MFEI: -20.020 AMFE: -0.561 GC content %: 35.657
Atauschii_AET7Gv20166900.6 AET7Gv20166900.6	Low	No	802	OG0002863		Get ORF Coding potential... Type: noncoding Potential: -1.073 Folding energies... MFEI: -23.379 AMFE: -0.537 GC content %: 43.516
Atauschii_AET7Gv20166900.7 AET7Gv20166900.7	Low	No	834	OG0002863		Get ORF Coding potential... Type: noncoding Potential: -1.201 Folding energies... MFEI: -23.957 AMFE: -0.547 GC content %: 43.765
Atauschii_AET7Gv20166900.8 AET7Gv20166900.8	Low	No	839	OG0002863		Get ORF Coding potential... Type: noncoding Potential: -1.201 Folding energies... MFEI: -24.100 AMFE: -0.549 GC content %: 43.862

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_AET7Gv20166900.6	RepBase (RepeatMasker)	2014-01-31	DNA/CMC-EnSpm
Atauschii_AET7Gv20166900.7	RepBase (RepeatMasker)	2014-01-31	DNA/CMC-EnSpm
Atauschii_AET7Gv20166900.8	RepBase (RepeatMasker)	2014-01-31	DNA/CMC-EnSpm
Atauschii_AET7Gv20166900.5	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).