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_AET7Gv20301900 [ AET7Gv20301900]	7D	70999764	71006925	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_AET7Gv20301900.11 AET7Gv20301900.11	Low	No	2802	OG0007087		Get ORF Coding potential... Type: noncoding Potential: -1.153 Folding energies... MFEI: -28.518 AMFE: -0.666 GC content %: 42.791
Atauschii_AET7Gv20301900.13 AET7Gv20301900.13	Low	No	2784	OG0007087		Get ORF Coding potential... Type: noncoding Potential: -0.601 Folding energies... MFEI: -28.473 AMFE: -0.662 GC content %: 42.996
Atauschii_AET7Gv20301900.3 AET7Gv20301900.3	High	No	593	OG0007087		Get ORF Coding potential... Type: noncoding Potential: -1.152 Folding energies... MFEI: -29.258 AMFE: -0.615 GC content %: 47.555
Atauschii_AET7Gv20301900.5 AET7Gv20301900.5	High	No	766	OG0007087		Get ORF Coding potential... Type: noncoding Potential: -0.936 Folding energies... MFEI: -27.585 AMFE: -0.600 GC content %: 45.953
Atauschii_AET7Gv20301900.8 AET7Gv20301900.8	High	No	1359	OG0007087		Get ORF Coding potential... Type: noncoding Potential: -0.653 Folding energies... MFEI: -27.932 AMFE: -0.646 GC content %: 43.267

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_AET7Gv20301900.11	RepBase (RepeatMasker)	2014-01-31	DNA/hAT-Tip100
Atauschii_AET7Gv20301900.13	RepBase (RepeatMasker)	2014-01-31	DNA/hAT-Tip100

Gene models

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