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_1BL_67A769A2C Traes_1BL_67A769A2C	ta_iwgsc_1bl_v1_3863040	1499	1957	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_1BL_67A769A2C.3 Traes_1BL_67A769A2C.3 PAC:31965462	Low	No	271		Get ORF Coding potential... Type: noncoding Potential: -0.089 Folding energies... MFEI: -30.517 AMFE: -0.559 GC content %: 54.613
Taestivum_Traes_1BL_67A769A2C.4 Traes_1BL_67A769A2C.4 PAC:31965463	High	No	234		Get ORF Coding potential... Type: noncoding Potential: -0.817 Folding energies... MFEI: -29.188 AMFE: -0.569 GC content %: 51.282

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_1BL_67A769A2C.3	RepBase (RepeatMasker)	2014-01-31	MDR3

Gene models

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