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_008G1527002 [ B456_008G1527002]	8	41013589	41014740	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_KJB46831 KJB46831	High	No	219	OG0002601		Get ORF Coding potential... Type: noncoding Potential: -0.693 Folding energies... MFEI: -22.374 AMFE: -0.590 GC content %: 37.900
Graimondii_KJB46832 KJB46832	Low	No	457	OG0002601		Get ORF Coding potential... Type: noncoding Potential: -0.871 Folding energies... MFEI: -22.013 AMFE: -0.680 GC content %: 32.385
Graimondii_KJB46833 KJB46833	High	No	244	OG0002601		Get ORF Coding potential... Type: noncoding Potential: -0.701 Folding energies... MFEI: -20.205 AMFE: -0.567 GC content %: 35.656

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_KJB46832	SwissProt	2021-04-01	Q5HZ60	2.07e-7

Gene models

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