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_AET1Gv20418500 [ AET1Gv20418500]	1D	230414134	230444978	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_AET1Gv20418500.4 AET1Gv20418500.4	High	No	2196	OG0068358		Get ORF Coding potential... Type: noncoding Potential: -1.292 Folding energies... MFEI: -27.500 AMFE: -0.710 GC content %: 38.752
Atauschii_AET1Gv20418500.68 AET1Gv20418500.68	Low	No	481	OG0068359		Get ORF Coding potential... Type: noncoding Potential: -0.827 Folding energies... MFEI: -24.719 AMFE: -0.610 GC content %: 40.541
Atauschii_AET1Gv20418500.69 AET1Gv20418500.69	Low	No	993	OG0068360		Get ORF Coding potential... Type: noncoding Potential: -0.756 Folding energies... MFEI: -33.374 AMFE: -0.654 GC content %: 51.057
Atauschii_AET1Gv20418500.72 AET1Gv20418500.72	High	No	587	OG0068361		Get ORF Coding potential... Type: noncoding Potential: -0.841 Folding energies... MFEI: -41.472 AMFE: -0.584 GC content %: 71.039

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_AET1Gv20418500.68	SwissProt	2021-04-01	Q9FVV6	1.37e-6
Atauschii_AET1Gv20418500.69	SwissProt	2021-04-01	Q7XAK4	4.76e-4

Gene models

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