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_TRIDC5AG050930 [ TRIDC5AG050930]	5A	548204215	548206142	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_TRIDC5AG050930.1 TRIDC5AG050930.1	Low	No	1759	OG0062303		Get ORF Coding potential... Type: noncoding Potential: -0.990 Folding energies... MFEI: -29.449 AMFE: -0.620 GC content %: 47.470
Tdicoccoides_TRIDC5AG050930.2 TRIDC5AG050930.2	High	No	583	OG0062303		Get ORF Coding potential... Type: noncoding Potential: -1.153 Folding energies... MFEI: -31.046 AMFE: -0.624 GC content %: 49.743

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_TRIDC5AG050930.1	RepBase (RepeatMasker)	2014-01-31	DNA/MULE-MuDR

Gene models

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