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_AET7Gv20847900 [ AET7Gv20847900]	7D	435457661	435462450	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_AET7Gv20847900.13 AET7Gv20847900.13	High	No	1680	OG0004852		Get ORF Coding potential... Type: noncoding Potential: -0.883 Folding energies... MFEI: -30.036 AMFE: -0.600 GC content %: 50.060
Atauschii_AET7Gv20847900.15 AET7Gv20847900.15	High	No	552	OG0004852		Get ORF Coding potential... Type: noncoding Potential: -0.636 Folding energies... MFEI: -27.899 AMFE: -0.595 GC content %: 46.920
Atauschii_AET7Gv20847900.16 AET7Gv20847900.16	High	No	544	OG0004852		Get ORF Coding potential... Type: noncoding Potential: -1.017 Folding energies... MFEI: -30.294 AMFE: -0.675 GC content %: 44.853
Atauschii_AET7Gv20847900.17 AET7Gv20847900.17	Low	No	1296	OG0004852		Get ORF Coding potential... Type: noncoding Potential: -1.091 Folding energies... MFEI: -26.759 AMFE: -0.662 GC content %: 40.432
Atauschii_AET7Gv20847900.3 AET7Gv20847900.3	High	No	1039	OG0004852		Get ORF Coding potential... Type: noncoding Potential: -0.824 Folding energies... MFEI: -32.012 AMFE: -0.552 GC content %: 58.037
Atauschii_AET7Gv20847900.4 AET7Gv20847900.4	High	No	1576	OG0004852		Get ORF Coding potential... Type: noncoding Potential: -0.860 Folding energies... MFEI: -29.734 AMFE: -0.586 GC content %: 50.698
Atauschii_AET7Gv20847900.8 AET7Gv20847900.8	High	No	1182	OG0002421		Get ORF Coding potential... Type: noncoding Potential: -0.841 Folding energies... MFEI: -32.741 AMFE: -0.577 GC content %: 56.768

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_AET7Gv20847900.17	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).