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
Tdicoccoides_TRIDC3AG013360 [ TRIDC3AG013360]	3A	70063809	70077782	v1	Triticum dicoccoides (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
Tdicoccoides_TRIDC3AG013360.13 TRIDC3AG013360.13	Low	Yes	2251	OG0357541		Get ORF Coding potential... Type: noncoding Potential: -0.676 Folding energies... MFEI: -28.103 AMFE: -0.686 GC content %: 40.960
Tdicoccoides_TRIDC3AG013360.17 TRIDC3AG013360.17	High	No	1280	OG0061694		Get ORF Coding potential... Type: noncoding Potential: -0.719 Folding energies... MFEI: -28.156 AMFE: -0.679 GC content %: 41.484

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
Tdicoccoides_TRIDC3AG013360.13	SwissProt	2021-04-01	Q6Z4U2	1.65e-10
Tdicoccoides_TRIDC3AG013360.13	Rfam	14.6	mir-340	0.0055

Gene models

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