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_AET7Gv20388100 [ AET7Gv20388100]	7D	104982656	104988690	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_AET7Gv20388100.2 AET7Gv20388100.2	High	No	757	OG0016733		Get ORF Coding potential... Type: noncoding Potential: -1.090 Folding energies... MFEI: -36.605 AMFE: -0.660 GC content %: 55.482
Atauschii_AET7Gv20388100.4 AET7Gv20388100.4	High	No	748	OG0016733		Get ORF Coding potential... Type: noncoding Potential: -1.089 Folding energies... MFEI: -34.933 AMFE: -0.644 GC content %: 54.278
Atauschii_AET7Gv20388100.7 AET7Gv20388100.7	Low	No	1864	OG0080275		Get ORF Coding potential... Type: noncoding Potential: -0.909 Folding energies... MFEI: -23.058 AMFE: -0.625 GC content %: 36.910
Atauschii_AET7Gv20388100.8 AET7Gv20388100.8	High	No	843	OG0016733		Get ORF Coding potential... Type: noncoding Potential: -1.252 Folding energies... MFEI: -21.471 AMFE: -0.526 GC content %: 40.807

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_AET7Gv20388100.7	SwissProt	2021-04-01	Q9FHE1	1.23e-6
Atauschii_AET7Gv20388100.7	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).