Plant Circular RNA Database

Detail information of Gh_A03G0087_circ_g.1

			
						 General Information
					
						CircRNA Name
						Gh_A03G0087_circ_g.1
					
						ID in PlantcircBase
						ghi_circ_000258
					
						Alias
						A03:1316709|1319269
					
						Organism
						
							Gossypium hirsutum						
					
						Position
						
							chrA03: 1316709-1319269  JBrowse»						
					
						Reference genome
						
							v1.1						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							Gh_A03G0087						
					
						Parent gene annotation
						
							SIMILAR TO: AT5G47500, Pectin lyase-like superfamily protein
							
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						Support reads
						2
					
						Tissues
						leaf
					
						Exon boundary  
						
							Yes-Yes							"Exon boundary" shows whether the splicing sites are on the boundary of exons or not. For example, "Yes-No" represents the donor splicing site is on the exon boundary and the accepter is not on the exon boundary.

						Splicing signals  
						
							CT-AC							The splicing signals of the circRNA. For example, "AG-GT" represents that the donor and the accepter splicing signal is "AG" and "GT", respectively.

						Number of exons covered
						Gh_A03G0087:3

General Information
CircRNA Name	Gh_A03G0087_circ_g.1
ID in PlantcircBase	ghi_circ_000258
Alias	A03:1316709\|1319269
Organism	Gossypium hirsutum
Position	chrA03: 1316709-1319269 JBrowse»
Reference genome	v1.1
Type	e-circRNA
Identification method	CIRI
Parent gene	Gh_A03G0087
Parent gene annotation	SIMILAR TO: AT5G47500, Pectin lyase-like superfamily protein
Parent gene strand	-
Alternative splicing	NA
Support reads	2
Tissues	leaf
Exon boundary	Yes-Yes "Exon boundary" shows whether the splicing sites are on the boundary of exons or not. For example, "Yes-No" represents the donor splicing site is on the exon boundary and the accepter is not on the exon boundary.
Splicing signals	CT-AC The splicing signals of the circRNA. For example, "AG-GT" represents that the donor and the accepter splicing signal is "AG" and "GT", respectively.
Number of exons covered	Gh_A03G0087:3

			
						 Experimental Information
					
						Sanger sequencing for BSS  
						
							NA							Sanger sequencing for back-splicing site (BSS) validation. "Yes" represents Sanger sequencing has been performed to valid the back-splicing site, "No" represents the opposite, "NA" represents "not available".

						PCR primers for BSS   
						
							NA							PCR primers used in back-splicing site (BSS) validation.

						Sanger sequencing for FL   
						
							NA							Sanger sequencing for full-length (FL) sequence validation of circRNAs. "Yes" represents Sanger sequencing has been performed to valid the full-length of circRNA, "No" represents the opposite.

						PCR primers for FL   
						
							NA							 PCR primers used in full-length (FL) sequence validation.

Experimental Information
Sanger sequencing for BSS	NA Sanger sequencing for back-splicing site (BSS) validation. "Yes" represents Sanger sequencing has been performed to valid the back-splicing site, "No" represents the opposite, "NA" represents "not available".
PCR primers for BSS	NA PCR primers used in back-splicing site (BSS) validation.
Sanger sequencing for FL	NA Sanger sequencing for full-length (FL) sequence validation of circRNAs. "Yes" represents Sanger sequencing has been performed to valid the full-length of circRNA, "No" represents the opposite.
PCR primers for FL	NA PCR primers used in full-length (FL) sequence validation.

			
				
						 Sequences
					

				
						Splice junction sequence  
						
							ACGGTCACAAGCTCTGTCGTGCCACTCAATAAACGTCGTCTCTCTACCCGCACCTTGAAACGTT
ATGTATGGCTTCGTCGCCGGCACCACCAACTTCTCTttattctggttgttaacatggtcccagt
cgtcccaaccgccttgagcaatgagattatcaaagtaggtgtaagaatagacaatcctggagta
ttgaccca

									
								

					

						Assembled circRNA sequence  
						
							NA
The sequence of a circRNA based on assembly using circseq-cup (Ye et al., 2016) or CIRI-full (Zheng and Zhao, 2018) or CIRCexplorer2 (Zhang et al., 2016).

					

						Full-length trsnacripts
						
							NA						
					

						Genomic sequence
						
							TTATTCTGGTTGTTAACATGGTCCCAGTCGTCCCAACCGCCTTGAGCAATGAGATTATCAAAGT
AGGTGTAAGAATAGACAATCCTGGAGTATTGACCCATGGCTCGACCTACATAAAGTGGGCCAGT
ACCCGTCACTGCAGTTTACAAAAGCAAATCCGCTTTTCTCATCTGGTGAGTTCCTATCATGGGC
TGCTATGGATCCAAATCTCGTAACTATGGAGTGTAATTCACATTCCTGTAAAACATTCCATTTC
TCACTATTTTATTTCAGTCTCATATTGCAAGCAACAACATTTAAACCCTAAATTGGAAATTTAA
AAAAATCTTGAGCTAAAGGCATAAATTTTTTTCTTAAGACGACTTAAATTGAATTATAATTTTT
TTTTGTGAAGGACTAAAAAGGTAATTTAACCATTTAGACGAAGGAAGGGCCAATGCCCCTTCAT
GACCCCTTTGGATTCAACCTAACATGAGTAGACCTCTCAATTCTTATCTAACTCAAAAGCTTGA
TTGGATTAATCCGAATCTTAACTAGACTTATCTCAATTTGACTATAAATAGTCAACAAATTGAA
CTCATTCTATCCGTATTTTAAAATAACTTCGAACCCAAATAATAAAACCCTAAAATATCTCAAT
TAATATCTAAATGTTACAAACTCAAATAACAAAACCCAAAATTATCCAATCTAAAAACCTTAAT
TGATAAACTCTAATTACTCAAAACATAAAACAATTCTTACCCCAAATGGCACAAAAACAAAACA
GCTGAAAATAAACTAAAAATTTTAAAATTTAAAATGAATGACTTTCTGACATGGAAAAGCTCTT
TTCTTTTTCCTTTTGTTTTTTGTAAAGCTTTTATGGATAAGAGAGTCAGATTGGCCCTACACTA
TAATAATAAATAATAAATAATAGGTTAAAATTCACCATAAGTCCCTATACTTTTCAAAAATTTA
GAATTTAGTCATTATAATTTTATTTTTAAAAATTTAGTCCCTCCACTTTTCAATTTAAAAATTC
AAGTTTAATTGTTAACATTATTAAAAATTATCTAATTAAATTTGTTGGTACGATATTTTGAAAT
TAAAAAAAATTTTCGATGGCCAAAATAATTTTAACAATATTAACAACTAGACTTAAAATTTTAA
ATCTGAAAAGTAGAGTAATTAAATTCTTGAAATAAAAAGTATAAGGGTTAAATTTCAAAGTTAC
AAAGAGTATAATATTTTAACCTAAATAGAAAAAATAATATTTGTTCTTACTTTGTACATGGAAC
GGCCATTTCCGAAGATGAAGTCGATGGAACCCTCAATATAACATTGCTTGAAATAATGACGTCC
GGCATCGTCGCAAAGAGTGTCTTGTGCACCGTAGAATCCACACCCCGAGAAATATGCCTTGTCT
CCAGAAATACGGAACGCCACAGCTTGCCACCCTTGCATTCCTGGCTTCGGAGCCGGTGCTGTAT
TCTACATGATTTAATGCATTGTAACTTTTTCTTTCCATCATTACAAATTTAGACGATGAGTTAC
TAGGGTTTGAATTCTAGCTACACAGGCTATATTATATATATATTTTACAATACCGTACAATGCA
TTGACGGTGTATAATTTTATACGATGCTAATAAATTTGATGAGGTCACATAATCAATAATCTTC
TAAGTTAAATTTATTTACCTTCATTTTTAATAATGTGTTATCATCATATCCATTAATAAAGCAT
AGAATTATACACTATCAGTGCATCGTAAAAAAAAGCTTATTTGCAACTTTAAGAAGAGAAATGT
TTTCGCATTAGTCAAATTATAGTTTTGGTCCTCTAATATATTCAAATTTAAGATCTAATTTTTA
TACTTTAATCTAACATAATTTGATATTTACTTTTCTAATATCATTAGTTAATCTAAATAGTTAA
CCTTGTTTCCTATTCTAGTTTTAAAAAGGATTAAATCACTTTTGGGGCCTAAATTTGGCAATTA
TTTCCACATTGAGGCTTGAATTTTTTTTTGTCAAAGTTAGTCATTGAACTTAGCAATTATTCCT
ATATTGGGACGTGAACTTTTTTTTTGTCAAAATTAATCCCTAGACTTGTTAATTGTTCCCACTT
TAGGGCCTAAACACTTTTTTGTCGAAGTTAATCCTTGATATTTCCTTAAAAACCCTAAAATTCA
AACCCCAATGTAGGAATAATTGTCAAGTTCAAGCCCCAATATGATAATAATTATCGAATTTAGG
AATTAACTTAAACAAAAAAAAGTTCAAGCCCCAATATGAGAATATTTAGCTATTTAAACACAAA
CTTATAGCAAATTAAAATATTAAATTCTCAATACCAAAATCATAATTTAACCTTTCTTTATATT
TACCTTGAAGCTAATATTTCTAGCAGAGAAATAATTAGCATACACAGTAACGGAAGCCGTTTGA
TAAGTACGCAACTGTTGACCATTAGACCCACGGTCACAAGCTCTGTCGTGCCACTCAATAAACG
TCGTCTCTCTACCCGCACCTTGAAACGTTATGTATGGCTTCGTCGCCGGCACCACCAACTTCTC
T
						
					

			
		

Sequences
Splice junction sequence	ACGGTCACAAGCTCTGTCGTGCCACTCAATAAACGTCGTCTCTCTACCCGCACCTTGAAACGTT ATGTATGGCTTCGTCGCCGGCACCACCAACTTCTCTttattctggttgttaacatggtcccagt cgtcccaaccgccttgagcaatgagattatcaaagtaggtgtaagaatagacaatcctggagta ttgaccca
Assembled circRNA sequence	NA The sequence of a circRNA based on assembly using circseq-cup (Ye et al., 2016) or CIRI-full (Zheng and Zhao, 2018) or CIRCexplorer2 (Zhang et al., 2016).
Full-length trsnacripts	NA
Genomic sequence	TTATTCTGGTTGTTAACATGGTCCCAGTCGTCCCAACCGCCTTGAGCAATGAGATTATCAAAGT AGGTGTAAGAATAGACAATCCTGGAGTATTGACCCATGGCTCGACCTACATAAAGTGGGCCAGT ACCCGTCACTGCAGTTTACAAAAGCAAATCCGCTTTTCTCATCTGGTGAGTTCCTATCATGGGC TGCTATGGATCCAAATCTCGTAACTATGGAGTGTAATTCACATTCCTGTAAAACATTCCATTTC TCACTATTTTATTTCAGTCTCATATTGCAAGCAACAACATTTAAACCCTAAATTGGAAATTTAA AAAAATCTTGAGCTAAAGGCATAAATTTTTTTCTTAAGACGACTTAAATTGAATTATAATTTTT TTTTGTGAAGGACTAAAAAGGTAATTTAACCATTTAGACGAAGGAAGGGCCAATGCCCCTTCAT GACCCCTTTGGATTCAACCTAACATGAGTAGACCTCTCAATTCTTATCTAACTCAAAAGCTTGA TTGGATTAATCCGAATCTTAACTAGACTTATCTCAATTTGACTATAAATAGTCAACAAATTGAA CTCATTCTATCCGTATTTTAAAATAACTTCGAACCCAAATAATAAAACCCTAAAATATCTCAAT TAATATCTAAATGTTACAAACTCAAATAACAAAACCCAAAATTATCCAATCTAAAAACCTTAAT TGATAAACTCTAATTACTCAAAACATAAAACAATTCTTACCCCAAATGGCACAAAAACAAAACA GCTGAAAATAAACTAAAAATTTTAAAATTTAAAATGAATGACTTTCTGACATGGAAAAGCTCTT TTCTTTTTCCTTTTGTTTTTTGTAAAGCTTTTATGGATAAGAGAGTCAGATTGGCCCTACACTA TAATAATAAATAATAAATAATAGGTTAAAATTCACCATAAGTCCCTATACTTTTCAAAAATTTA GAATTTAGTCATTATAATTTTATTTTTAAAAATTTAGTCCCTCCACTTTTCAATTTAAAAATTC AAGTTTAATTGTTAACATTATTAAAAATTATCTAATTAAATTTGTTGGTACGATATTTTGAAAT TAAAAAAAATTTTCGATGGCCAAAATAATTTTAACAATATTAACAACTAGACTTAAAATTTTAA ATCTGAAAAGTAGAGTAATTAAATTCTTGAAATAAAAAGTATAAGGGTTAAATTTCAAAGTTAC AAAGAGTATAATATTTTAACCTAAATAGAAAAAATAATATTTGTTCTTACTTTGTACATGGAAC GGCCATTTCCGAAGATGAAGTCGATGGAACCCTCAATATAACATTGCTTGAAATAATGACGTCC GGCATCGTCGCAAAGAGTGTCTTGTGCACCGTAGAATCCACACCCCGAGAAATATGCCTTGTCT CCAGAAATACGGAACGCCACAGCTTGCCACCCTTGCATTCCTGGCTTCGGAGCCGGTGCTGTAT TCTACATGATTTAATGCATTGTAACTTTTTCTTTCCATCATTACAAATTTAGACGATGAGTTAC TAGGGTTTGAATTCTAGCTACACAGGCTATATTATATATATATTTTACAATACCGTACAATGCA TTGACGGTGTATAATTTTATACGATGCTAATAAATTTGATGAGGTCACATAATCAATAATCTTC TAAGTTAAATTTATTTACCTTCATTTTTAATAATGTGTTATCATCATATCCATTAATAAAGCAT AGAATTATACACTATCAGTGCATCGTAAAAAAAAGCTTATTTGCAACTTTAAGAAGAGAAATGT TTTCGCATTAGTCAAATTATAGTTTTGGTCCTCTAATATATTCAAATTTAAGATCTAATTTTTA TACTTTAATCTAACATAATTTGATATTTACTTTTCTAATATCATTAGTTAATCTAAATAGTTAA CCTTGTTTCCTATTCTAGTTTTAAAAAGGATTAAATCACTTTTGGGGCCTAAATTTGGCAATTA TTTCCACATTGAGGCTTGAATTTTTTTTTGTCAAAGTTAGTCATTGAACTTAGCAATTATTCCT ATATTGGGACGTGAACTTTTTTTTTGTCAAAATTAATCCCTAGACTTGTTAATTGTTCCCACTT TAGGGCCTAAACACTTTTTTGTCGAAGTTAATCCTTGATATTTCCTTAAAAACCCTAAAATTCA AACCCCAATGTAGGAATAATTGTCAAGTTCAAGCCCCAATATGATAATAATTATCGAATTTAGG AATTAACTTAAACAAAAAAAAGTTCAAGCCCCAATATGAGAATATTTAGCTATTTAAACACAAA CTTATAGCAAATTAAAATATTAAATTCTCAATACCAAAATCATAATTTAACCTTTCTTTATATT TACCTTGAAGCTAATATTTCTAGCAGAGAAATAATTAGCATACACAGTAACGGAAGCCGTTTGA TAAGTACGCAACTGTTGACCATTAGACCCACGGTCACAAGCTCTGTCGTGCCACTCAATAAACG TCGTCTCTCTACCCGCACCTTGAAACGTTATGTATGGCTTCGTCGCCGGCACCACCAACTTCTC T

			
						 Conservation Information
					
						Conserved circRNAs
						
							gra_circ_000286 						
					
						PMCS

Conservation Information
Conserved circRNAs	gra_circ_000286
PMCS

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							1316811-1319234(-)
1318156-1319234(-)
1318045-1318026(+)
1319235-1316750(+)
						
						Potential amino acid sequence
						
							MGQYSRIVYSYTYFDNLIAQGGWDDWDHVNNQNKEKLVVPATKPYITFQGAGRETTFIEWHDRA
CDRGSNGQQLRTYQTASVTVYANYFSARNISFKNTAPAPKPGMQGWQAVAFRISGDKAYFSGCG
FYGAQDTLCDDAGRHYFKQCYIEGSIDFIFGNGRSMYKVEPWVNTPGLSILTPTLIISLLKAVG
TTGTMLTTRIKRSWWCRRRSHT*(-)
MQGWQAVAFRISGDKAYFSGCGFYGAQDTLCDDAGRHYFKQCYIEGSIDFIFGNGRSMYKVEPW
VNTPGLSILTPTLIISLLKAVGTTGTMLTTRIKRSWWCRRRSHT*(-)
MTSGIVAKSVLCTVESTPREICLVSRNTERHSLPPLHSWLRSRCCILEANISSREIISIHSNGS
RLISTQLLTIRPTVTSSVVPLNKRRLSTRTLKRYVWLRRRHHQLLFILVVNMVPVVPTALSNEI
IKVGVRIDNPGVLTHGSTLYMERPFPKMKSMEPSI*(+)
MYGFVAGTTNFSLFWLLTWSQSSQPP*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	1316811-1319234(-) 1318156-1319234(-) 1318045-1318026(+) 1319235-1316750(+)
Potential amino acid sequence	MGQYSRIVYSYTYFDNLIAQGGWDDWDHVNNQNKEKLVVPATKPYITFQGAGRETTFIEWHDRA CDRGSNGQQLRTYQTASVTVYANYFSARNISFKNTAPAPKPGMQGWQAVAFRISGDKAYFSGCG FYGAQDTLCDDAGRHYFKQCYIEGSIDFIFGNGRSMYKVEPWVNTPGLSILTPTLIISLLKAVG TTGTMLTTRIKRSWWCRRRSHT(-) MQGWQAVAFRISGDKAYFSGCGFYGAQDTLCDDAGRHYFKQCYIEGSIDFIFGNGRSMYKVEPW VNTPGLSILTPTLIISLLKAVGTTGTMLTTRIKRSWWCRRRSHT(-) MTSGIVAKSVLCTVESTPREICLVSRNTERHSLPPLHSWLRSRCCILEANISSREIISIHSNGS RLISTQLLTIRPTVTSSVVPLNKRRLSTRTLKRYVWLRRRHHQLLFILVVNMVPVVPTALSNEI IKVGVRIDNPGVLTHGSTLYMERPFPKMKSMEPSI(+) MYGFVAGTTNFSLFWLLTWSQSSQPP(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Zhao et al., 2017b

circRNA

Detail information of Gh_A03G0087_circ_g.1

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