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
Graimondii_B456_010G155100 [ B456_010G155100]	10	42721039	42722998	v6	Gossypium raimondii (Ensembl Plants 51)	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	Orthologous group	Sequence	Details
Graimondii_KJB66729 KJB66729	Low	No	1097	OG0003152		Get ORF Coding potential... Type: noncoding Potential: -0.569 Folding energies... MFEI: -26.208 AMFE: -0.706 GC content %: 37.101
Graimondii_KJB66730 KJB66730	High	No	264	OG0179814		Get ORF Coding potential... Type: noncoding Potential: -0.508 Folding energies... MFEI: -23.220 AMFE: -0.568 GC content %: 40.909
Graimondii_KJB66731 KJB66731	Low	No	1101	OG0179815		Get ORF Coding potential... Type: noncoding Potential: -0.606 Folding energies... MFEI: -26.285 AMFE: -0.708 GC content %: 37.148

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
Graimondii_KJB66731	RepBase (RepeatMasker)	2014-01-31	LTR/Copia; LTR/Gypsy
Graimondii_KJB66729	RepBase (RepeatMasker)	2014-01-31	LTR/Copia; LTR/Gypsy

Gene models

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