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_TRIDC2AG022840 [ TRIDC2AG022840]	2A	141867672	141870304	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_TRIDC2AG022840.3 TRIDC2AG022840.3	Low	No	656	OG0015187		Get ORF Coding potential... Type: noncoding Potential: -0.538 Folding energies... MFEI: -28.247 AMFE: -0.590 GC content %: 47.866
Tdicoccoides_TRIDC2AG022840.5 TRIDC2AG022840.5	Low	No	575	OG0015187		Get ORF Coding potential... Type: noncoding Potential: -0.832 Folding energies... MFEI: -25.443 AMFE: -0.607 GC content %: 41.913
Tdicoccoides_TRIDC2AG022840.6 TRIDC2AG022840.6	High	No	1219	OG0015187		Get ORF Coding potential... Type: noncoding Potential: -0.977 Folding energies... MFEI: -25.103 AMFE: -0.654 GC content %: 38.392
Tdicoccoides_TRIDC2AG022840.7 TRIDC2AG022840.7	High	No	613	OG0015187		Get ORF Coding potential... Type: noncoding Potential: -0.991 Folding energies... MFEI: -27.553 AMFE: -0.681 GC content %: 40.457

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_TRIDC2AG022840.3	SwissProt	2021-04-01	O74978	1.42e-8
Tdicoccoides_TRIDC2AG022840.5	SwissProt	2021-04-01	Q6GL69	2.85e-4

Gene models

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