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
Athaliana_AT4G21192 AT4G21192	Chr4	11294180	11295430	Phytozome	TAIR10	Arabidopsis_thaliana	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	Sequence	Details
Athaliana_AT4G21192.1 AT4G21192.1 PAC:19648466	Low	No	618		Get ORF Coding potential... Type: noncoding Potential: -0.909 Folding energies... MFEI: -20.922 AMFE: -0.585 GC content %: 35.761
Athaliana_AT4G21192.2 AT4G21192.2 PAC:19648467	Low	No	541		Get ORF Coding potential... Type: noncoding Potential: -0.872 Folding energies... MFEI: -19.575 AMFE: -0.529 GC content %: 36.969

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
Athaliana_AT4G21192.2	SwissProt	2015-06-01	Q6DHJ6	2.0e-8
Athaliana_AT4G21192.1	SwissProt	2015-06-01	Q6DHJ6	3.0e-8

Gene models

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