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_TRIDC4AG006560 [ TRIDC4AG006560]	4A	38886898	38889067	v1	Triticum dicoccoides (Ensembl Plants 51)	Coding? No

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_TRIDC4AG006560.1 TRIDC4AG006560.1	Low	No	751	OG0359861		Get ORF Coding potential... Type: noncoding Potential: -0.660 Folding energies... MFEI: -28.429 AMFE: -0.641 GC content %: 44.341
Tdicoccoides_TRIDC4AG006560.2 TRIDC4AG006560.2	High	No	218	OG0359862		Get ORF Coding potential... Type: noncoding Potential: -0.668 Folding energies... MFEI: -21.881 AMFE: -0.575 GC content %: 38.073
Tdicoccoides_TRIDC4AG006560.3 TRIDC4AG006560.3	High	No	243	OG0000778		Get ORF Coding potential... Type: noncoding Potential: -0.503 Folding energies... MFEI: -21.235 AMFE: -0.521 GC content %: 40.741

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_TRIDC4AG006560.1	RepBase (RepeatMasker)	2014-01-31	LTR/Gypsy

Gene models

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