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_012G093300 [ B456_012G093300]	12	16600218	16602513	v6	Gossypium raimondii (Ensembl Plants 51)	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	Orthologous group	Sequence	Details
Graimondii_KJB76530 KJB76530	Low	No	1645	OG0034702		Get ORF Coding potential... Type: noncoding Potential: -0.762 Folding energies... MFEI: -23.301 AMFE: -0.720 GC content %: 32.340
Graimondii_KJB76532 KJB76532	Low	No	864	OG0034702		Get ORF Coding potential... Type: noncoding Potential: -0.681 Folding energies... MFEI: -22.963 AMFE: -0.694 GC content %: 33.102

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_KJB76530	SwissProt	2021-04-01	Q93Y08	3.98e-4
Graimondii_KJB76532	SwissProt	2021-04-01	Q93Y08	1.2e-4

Gene models

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