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_TRIDC6BG052660 [ TRIDC6BG052660]	6B	560312786	560315155	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_TRIDC6BG052660.6 TRIDC6BG052660.6	Low	No	1312	OG0062565		Get ORF Coding potential... Type: noncoding Potential: -0.027 Folding energies... MFEI: -30.869 AMFE: -0.629 GC content %: 49.085
Tdicoccoides_TRIDC6BG052660.8 TRIDC6BG052660.8	Low	No	783	OG0365651		Get ORF Coding potential... Type: noncoding Potential: -1.096 Folding energies... MFEI: -34.202 AMFE: -0.655 GC content %: 52.235

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_TRIDC6BG052660.6	SwissProt	2021-04-01	A8B479	1.06e-20
Tdicoccoides_TRIDC6BG052660.8	SwissProt	2021-04-01	A8B479	1.25e-8
Tdicoccoides_TRIDC6BG052660.8	RepBase (RepeatMasker)	2014-01-31	LTR/Copia

Gene models

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