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_012G106500 [ B456_012G106500]	12	23931604	23935173	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_KJB76772 KJB76772	Low	No	2659	OG0011871		Get ORF Coding potential... Type: noncoding Potential: -1.047 Folding energies... MFEI: -22.787 AMFE: -0.671 GC content %: 33.960
Graimondii_KJB76773 KJB76773	High	No	2248	OG0011871		Get ORF Coding potential... Type: noncoding Potential: -1.220 Folding energies... MFEI: -22.105 AMFE: -0.658 GC content %: 33.585

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_KJB76772	SwissProt	2021-04-01	A0A3Q7	2.15e-4

Gene models

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