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_TRIDC4AG029990 [ TRIDC4AG029990]	4A	461260582	461527682	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_TRIDC4AG029990.18 TRIDC4AG029990.18	Low	No	2381	OG0360188		Get ORF Coding potential... Type: noncoding Potential: -1.229 Folding energies... MFEI: -20.655 AMFE: -0.624 GC content %: 33.095
Tdicoccoides_TRIDC4AG029990.2 TRIDC4AG029990.2	Low	No	255	OG0360189		Get ORF Coding potential... Type: noncoding Potential: -0.866 Folding energies... MFEI: -30.667 AMFE: -0.611 GC content %: 50.196

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_TRIDC4AG029990.18	SwissProt	2021-04-01	Q94BZ1	5.15e-6
Tdicoccoides_TRIDC4AG029990.2	SwissProt	2021-04-01	Q94BZ1	1.65e-6
Tdicoccoides_TRIDC4AG029990.18	RepBase (RepeatMasker)	2014-01-31	LTR/ERV1

Gene models

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