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	Source	Assembly	Species	Details
Taestivum_Traes_1DS_2E29C7B7D Traes_1DS_2E29C7B7D	ta_iwgsc_1ds_v1_1884650	2691	11060	Phytozome	v2.2	Triticum_aestivum	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	Sequence	Details
Taestivum_Traes_1DS_2E29C7B7D.10 Traes_1DS_2E29C7B7D.10 PAC:31920581	Low	Yes	848		Get ORF Coding potential... Type: noncoding Potential: -1.278 Folding energies... MFEI: -30.130 AMFE: -0.720 GC content %: 41.863
Taestivum_Traes_1DS_2E29C7B7D.12 Traes_1DS_2E29C7B7D.12 PAC:31920583	Low	No	916		Get ORF Coding potential... Type: noncoding Potential: -0.286 Folding energies... MFEI: -29.007 AMFE: -0.674 GC content %: 43.013
Taestivum_Traes_1DS_2E29C7B7D.8 Traes_1DS_2E29C7B7D.8 PAC:31920579	Low	Yes	371		Get ORF Coding potential... Type: noncoding Potential: -0.300 Folding energies... MFEI: -44.097 AMFE: -0.696 GC content %: 63.342

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
Taestivum_Traes_1DS_2E29C7B7D.10	Rfam	11.0	MIR1122	4.7e-8

Gene models

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