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
Macuminata_GSMUA_AchrUn_randomG19530_001 GSMUA_AchrUn_randomG19530_001	chrUn_random	93711858	93712787	Phytozome	v1	Musa_acuminata	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
Macuminata_GSMUA_AchrUn_randomT19530_001 GSMUA_AchrUn_randomT19530_001 PAC:32296723	Low	No	321		Get ORF Coding potential... Type: noncoding Potential: -1.591 Folding energies... MFEI: -26.480 AMFE: -0.515 GC content %: 51.402

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
Macuminata_GSMUA_AchrUn_randomT19530_001	RepBase (RepeatMasker)	2014-01-31	Gypsy-45_Mad-I

Gene models

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