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_AET5Gv20917800 [ AET5Gv20917800]	5D	479446729	479723471	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_AET5Gv20917800.2 AET5Gv20917800.2	High	No	1097	OG0077437		Get ORF Coding potential... Type: noncoding Potential: -0.862 Folding energies... MFEI: -39.107 AMFE: -0.696 GC content %: 56.153
Atauschii_AET5Gv20917800.21 AET5Gv20917800.21	Low	No	834	OG0007013		Get ORF Coding potential... Type: noncoding Potential: -0.083 Folding energies... MFEI: -31.835 AMFE: -0.659 GC content %: 48.321
Atauschii_AET5Gv20917800.51 AET5Gv20917800.51	Low	No	544	OG0077438		Get ORF Coding potential... Type: noncoding Potential: -0.040 Folding energies... MFEI: -33.088 AMFE: -0.629 GC content %: 52.574
Atauschii_AET5Gv20917800.52 AET5Gv20917800.52	High	No	237	OG0077439		Get ORF Coding potential... Type: noncoding Potential: -1.315 Folding energies... MFEI: -16.414 AMFE: -0.474 GC content %: 34.599
Atauschii_AET5Gv20917800.53 AET5Gv20917800.53	Low	No	547	OG0007013		Get ORF Coding potential... Type: noncoding Potential: -0.966 Folding energies... MFEI: -33.528 AMFE: -0.657 GC content %: 51.005
Atauschii_AET5Gv20917800.54 AET5Gv20917800.54	High	No	702	OG0007013		Get ORF Coding potential... Type: noncoding Potential: -1.182 Folding energies... MFEI: -31.638 AMFE: -0.648 GC content %: 48.860

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_AET5Gv20917800.21	SwissProt	2021-04-01	Q05609	1.44e-26
Atauschii_AET5Gv20917800.51	SwissProt	2021-04-01	Q05609	4.06e-12
Atauschii_AET5Gv20917800.53	SwissProt	2021-04-01	Q05609	4.52e-10

Gene models

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