Plant Circular RNA Database

Detail information of orai.009G350800_circ_g.5

			
						 General Information
					
						CircRNA Name
						orai.009G350800_circ_g.5
					
						ID in PlantcircBase
						gra_circ_001022
					
						Alias
						Chr09:44620339|44622475
					
						Organism
						
							Gossypium raimondii						
					
						Position
						
							chrChr09: 44620339-44622475  JBrowse»						
					
						Reference genome
						
							Graimondii_221						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							Gorai.009G350800						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						+
					
						Alternative splicing
						
							orai.009G350800_circ_g.1 orai.009G350800_circ_g.2 orai.009G350800_circ_g.3 orai.009G350800_circ_g.4 orai.009G350800_circ_g.6 orai.009G350800_circ_g.7 						
					
						Support reads
						15
					
						Tissues
						ovule
					
						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  
						
							GC-AG							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
						Gorai.009G350800.6:4
Gorai.009G350800.7:1
Gorai.009G350800.4:4
Gorai.009G350800.1:4
Gorai.009G350800.3:3
Gorai.009G350800.5:4
Gorai.009G350800.2:4

General Information
CircRNA Name	orai.009G350800_circ_g.5
ID in PlantcircBase	gra_circ_001022
Alias	Chr09:44620339\|44622475
Organism	Gossypium raimondii
Position	chrChr09: 44620339-44622475 JBrowse»
Reference genome	Graimondii_221
Type	ue-circRNA
Identification method	CIRI
Parent gene	Gorai.009G350800
Parent gene annotation	NA
Parent gene strand	+
Alternative splicing	orai.009G350800_circ_g.1 orai.009G350800_circ_g.2 orai.009G350800_circ_g.3 orai.009G350800_circ_g.4 orai.009G350800_circ_g.6 orai.009G350800_circ_g.7
Support reads	15
Tissues	ovule
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	GC-AG 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	Gorai.009G350800.6:4 Gorai.009G350800.7:1 Gorai.009G350800.4:4 Gorai.009G350800.1:4 Gorai.009G350800.3:3 Gorai.009G350800.5:4 Gorai.009G350800.2:4

			
						 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  
						
							TCCAAAACCAAGTTCCAAATATGGTGGAAGTAAAAGCGGCTCAATACTTTATCGGTTGGAGATA
ATGCAAATTGAACTGTTCTCTGTATATGGTGCCCAGaatgttctgattgggatggacattcccg
tacgagagaataaccaggcagtcggtgacttcaactattcggacatcgggattgatgatgaagt
tccttttg

									
								

					

						Assembled circRNA sequence  
						
							Yes
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
						
							Transcript length: 486
Transcript exons: 44620339-44620455,44620548-44620652,44621355-44621508,44
622366-44622475
AATGTTCTGATTGGGATGGACATTCCCGTACGAGAGAATAACCAGGCAGTCGGTGACTTCAACT
ATTCGGACATCGGGATTGATGATGAAGTTCCTTTTGACGATGAATATTTTGAGGTTATGGATTC
TGAAATATACGAGGCTCCGGTTCGTTGGGGGATGCCAGATTCGGCTGATAGCAGCTGGGTTCAT
CCTATATATTTTGCCAAGTGCTTGATGAAGGCTGTTCATGTAGAACATGACAGGAAAATGGACC
ATCCCTCTAATGGTGTTTCGATTGTCGGTTGCCTTCGACCAGCCTTTGCTGATGAAGAATCATA
TCTAAGAAGGCTATTCCATTTTGACTATGATGAAGGATACACCTCAGATTGGAAAGATGGCGAA
GCTCCAAAACCAAGTTCCAAATATGGTGGAAGTAAAAGCGGCTCAATACTTTATCGGTTGGAGA
TAATGCAAATTGAACTGTTCTCTGTATATGGTGCCCAG
						
					

						Genomic sequence
						
							AATGTTCTGATTGGGATGGACATTCCCGTACGAGAGAATAACCAGGCAGTCGGTGACTTCAACT
ATTCGGACATCGGGATTGATGATGAAGTTCCTTTTGACGATGAATATTTTGAGGTTAGAAACCA
CTGATTATTGACTTCTGAAGTGAAATCTGTGATATTCTCTTTTGTTAATTTTGGCTACTCAAGT
CCCATTCACGTAAATAGGTTATGGATTCTGAAATATACGAGGCTCCGGTTCGTTGGGGGATGCC
AGATTCGGCTGATAGCAGCTGGGTTCATCCTATATATTTTGCCAAGTGCTTGATGAAGGTGATT
GTGCCTGAGTTTCCCTTAAGTACTAGTTGTATTATAAGTTTTAATTGTACTCAATGACTATGTT
ACTCGGACTCTAGACTGATGGGTTATGCGTCTGACACGGGTATGCTCAAGTTTTCTTAGTTTTT
CTATATATATGGTGGATTATACCCTATACCCATGCTGAGTATGTGTCAAACACAAGTCTTGGAC
ACTGATACTTAAAGAAAAATAAAGAGTTCCAAGTAACATGGATCAATGATATCAGGGATGAAGC
AAGCCCGGTATGCCCCCCCCCCGGCTAAACAGGATAATTGCAGTTATAGCCCCTTGTAATAATC
AATTAGTTAATTTAAGCTTTTTTGACCCTTTGATTCATGGAAAAATTGCATTTTTCCCTCTAAA
AAAAGTAGTAATTCTGTTTTTTTTTGGCCAAACCAAAAAAAAAAAAAGTAATTCAATTTAAACC
CTTTTAACAAAATTTTTTAGCTTTGGCCCTCCTTAGATTTTATAATTTTATATCAGTCCCTGAA
TGATATTACGAGTTTTATCCTTTTCTATCTCCAATATGCTGCTAAGACAGTTTTTATCATGAGT
TTGGTAAGGCAGAAGTCTTAATTGGATCGAAGAGAATTCATGAGATGATGAGTAGATGCATATT
TGCATTTTGAATTTTATAGGTAACTCTGTTTACACTTAGTTTCTGCATTCATGCAGGCTGTTCA
TGTAGAACATGACAGGAAAATGGACCATCCCTCTAATGGTGTTTCGATTGTCGGTTGCCTTCGA
CCAGCCTTTGCTGATGAAGAATCATATCTAAGAAGGCTATTCCATTTTGACTATGATGAAGGAT
ACACCTCAGATTGGAAAGGTTTCTTATATTTCCACCCTAATACCATAATCAAGAACCTATGTTG
CTTTACTCAAAAAAAAAAAAATCTATGTTGCTCAGACTCTTCATTTTGTTTGAAGTAATCATAT
TCGAAATATGTATCAGACGTATACAGACATGGATATGGAGAGAAACTGAATATGCTCATGTCGA
ACACCTATCCGTATCCAATGCTTGGATCCTAATTCGAGTAGCATATATTAGCACAGTAGACCTC
TTTATCACTCAATTCTTCATTTTTCTTGTAGTATTTGTGTCTTAACACCTGTGTTTGAGGCATA
TTAAGACATGGGTGTGGGAATATGACTCTTCAAGAAAACTAAAAAAAGTAAAAAGAAAACATAC
TCATGTTGGACGCATACCCTTATCAAATTTGTTGACACAGCTCAGTTTGGAATGCGTATCCCAA
GAATTAGTCTCTTAACGAGACTTTTGTAACTTCATTTGAACTTCTGTTACTAAAACTCAGGTTT
GTCATAGTATACTTTACATAGGTATGGTATGTTTAAATTTTTATAAGTTTTTAATGTATTTGGA
GGATTCTTAATTGGTTATATCTCGTATCCATGTTCTAACACGCACTAAATACAGTACTTCAAGA
AAATTGAAGAATTGGAGCAACATAGATGAAATTACTTAATTCGGAATTTCTTCAAGCTGTTTGG
AGATCTCCCTAGCTTTTTTCTAGTAGTGGTTTGCTTGTGGAAGCTTGCAAACACTACTACCTTT
TGGTCTTTTTCTTTCAGAAGGGGAAATATAACTTTTTTGGTTAGCAAATTAAGAGTTGATTAAA
TCTTTAATTTGTCTTTGATCTGCTTGGTTTTGCTCTTGTGTAGATGGCGAAGCTCCAAAACCAA
GTTCCAAATATGGTGGAAGTAAAAGCGGCTCAATACTTTATCGGTTGGAGATAATGCAAATTGA
ACTGTTCTCTGTATATGGTGCCCAG
						
					

			
		

Sequences
Splice junction sequence	TCCAAAACCAAGTTCCAAATATGGTGGAAGTAAAAGCGGCTCAATACTTTATCGGTTGGAGATA ATGCAAATTGAACTGTTCTCTGTATATGGTGCCCAGaatgttctgattgggatggacattcccg tacgagagaataaccaggcagtcggtgacttcaactattcggacatcgggattgatgatgaagt tccttttg
Assembled circRNA sequence	Yes 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	Transcript length: 486 Transcript exons: 44620339-44620455,44620548-44620652,44621355-44621508,44 622366-44622475 AATGTTCTGATTGGGATGGACATTCCCGTACGAGAGAATAACCAGGCAGTCGGTGACTTCAACT ATTCGGACATCGGGATTGATGATGAAGTTCCTTTTGACGATGAATATTTTGAGGTTATGGATTC TGAAATATACGAGGCTCCGGTTCGTTGGGGGATGCCAGATTCGGCTGATAGCAGCTGGGTTCAT CCTATATATTTTGCCAAGTGCTTGATGAAGGCTGTTCATGTAGAACATGACAGGAAAATGGACC ATCCCTCTAATGGTGTTTCGATTGTCGGTTGCCTTCGACCAGCCTTTGCTGATGAAGAATCATA TCTAAGAAGGCTATTCCATTTTGACTATGATGAAGGATACACCTCAGATTGGAAAGATGGCGAA GCTCCAAAACCAAGTTCCAAATATGGTGGAAGTAAAAGCGGCTCAATACTTTATCGGTTGGAGA TAATGCAAATTGAACTGTTCTCTGTATATGGTGCCCAG
Genomic sequence	AATGTTCTGATTGGGATGGACATTCCCGTACGAGAGAATAACCAGGCAGTCGGTGACTTCAACT ATTCGGACATCGGGATTGATGATGAAGTTCCTTTTGACGATGAATATTTTGAGGTTAGAAACCA CTGATTATTGACTTCTGAAGTGAAATCTGTGATATTCTCTTTTGTTAATTTTGGCTACTCAAGT CCCATTCACGTAAATAGGTTATGGATTCTGAAATATACGAGGCTCCGGTTCGTTGGGGGATGCC AGATTCGGCTGATAGCAGCTGGGTTCATCCTATATATTTTGCCAAGTGCTTGATGAAGGTGATT GTGCCTGAGTTTCCCTTAAGTACTAGTTGTATTATAAGTTTTAATTGTACTCAATGACTATGTT ACTCGGACTCTAGACTGATGGGTTATGCGTCTGACACGGGTATGCTCAAGTTTTCTTAGTTTTT CTATATATATGGTGGATTATACCCTATACCCATGCTGAGTATGTGTCAAACACAAGTCTTGGAC ACTGATACTTAAAGAAAAATAAAGAGTTCCAAGTAACATGGATCAATGATATCAGGGATGAAGC AAGCCCGGTATGCCCCCCCCCCGGCTAAACAGGATAATTGCAGTTATAGCCCCTTGTAATAATC AATTAGTTAATTTAAGCTTTTTTGACCCTTTGATTCATGGAAAAATTGCATTTTTCCCTCTAAA AAAAGTAGTAATTCTGTTTTTTTTTGGCCAAACCAAAAAAAAAAAAAGTAATTCAATTTAAACC CTTTTAACAAAATTTTTTAGCTTTGGCCCTCCTTAGATTTTATAATTTTATATCAGTCCCTGAA TGATATTACGAGTTTTATCCTTTTCTATCTCCAATATGCTGCTAAGACAGTTTTTATCATGAGT TTGGTAAGGCAGAAGTCTTAATTGGATCGAAGAGAATTCATGAGATGATGAGTAGATGCATATT TGCATTTTGAATTTTATAGGTAACTCTGTTTACACTTAGTTTCTGCATTCATGCAGGCTGTTCA TGTAGAACATGACAGGAAAATGGACCATCCCTCTAATGGTGTTTCGATTGTCGGTTGCCTTCGA CCAGCCTTTGCTGATGAAGAATCATATCTAAGAAGGCTATTCCATTTTGACTATGATGAAGGAT ACACCTCAGATTGGAAAGGTTTCTTATATTTCCACCCTAATACCATAATCAAGAACCTATGTTG CTTTACTCAAAAAAAAAAAAATCTATGTTGCTCAGACTCTTCATTTTGTTTGAAGTAATCATAT TCGAAATATGTATCAGACGTATACAGACATGGATATGGAGAGAAACTGAATATGCTCATGTCGA ACACCTATCCGTATCCAATGCTTGGATCCTAATTCGAGTAGCATATATTAGCACAGTAGACCTC TTTATCACTCAATTCTTCATTTTTCTTGTAGTATTTGTGTCTTAACACCTGTGTTTGAGGCATA TTAAGACATGGGTGTGGGAATATGACTCTTCAAGAAAACTAAAAAAAGTAAAAAGAAAACATAC TCATGTTGGACGCATACCCTTATCAAATTTGTTGACACAGCTCAGTTTGGAATGCGTATCCCAA GAATTAGTCTCTTAACGAGACTTTTGTAACTTCATTTGAACTTCTGTTACTAAAACTCAGGTTT GTCATAGTATACTTTACATAGGTATGGTATGTTTAAATTTTTATAAGTTTTTAATGTATTTGGA GGATTCTTAATTGGTTATATCTCGTATCCATGTTCTAACACGCACTAAATACAGTACTTCAAGA AAATTGAAGAATTGGAGCAACATAGATGAAATTACTTAATTCGGAATTTCTTCAAGCTGTTTGG AGATCTCCCTAGCTTTTTTCTAGTAGTGGTTTGCTTGTGGAAGCTTGCAAACACTACTACCTTT TGGTCTTTTTCTTTCAGAAGGGGAAATATAACTTTTTTGGTTAGCAAATTAAGAGTTGATTAAA TCTTTAATTTGTCTTTGATCTGCTTGGTTTTGCTCTTGTGTAGATGGCGAAGCTCCAAAACCAA GTTCCAAATATGGTGGAAGTAAAAGCGGCTCAATACTTTATCGGTTGGAGATAATGCAAATTGA ACTGTTCTCTGTATATGGTGCCCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							ghi_circ_000292* ghi_circ_000075* 						
					
						PMCS
						0.430407655

Conservation Information
Conserved circRNAs	ghi_circ_000292* ghi_circ_000075*
PMCS	0.430407655

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							44620354-44622472(+)
44621391-44622418(-)
44620362-44622426(-)
						
						Potential amino acid sequence
						
							MDIPVRENNQAVGDFNYSDIGIDDEVPFDDEYFEVMDSEIYEAPVRWGMPDSADSSWVHPIYFA
KCLMKAVHVEHDRKMDHPSNGVSIVGCLRPAFADEESYLRRLFHFDYDEGYTSDWKDGEAPKPS
SKYGGSKSGSILYRLEIMQIELFSVYGAQNVLIGMDIPVRENNQAVGDFNYSDIGIDDEVPFDD
EYFEVMDSEIYEAPVRWGMPDSADSSWVHPIYFAKCLMKAVHVEHDRKMDHPSNGVSIVGCLRP
AFADEESYLRRLFHFDYDEGYTSDWKDGEAPKPSSKYGGSKSGSILYRLEIMQIELFSVYGAQN
VLIGMDIPVRENNQAVGDFNYSDIGIDDEVPFDDEYFEVMDSEIYEAPVRWGMPDSADSSWVHP
IYFAKCLMKAVHVEHDRKMDHPSNGVSIVGCLRPAFADEESYLRRLFHFDYDEGYTSDWKDGEA
PKPSSKYGGSKSGSILYRLEIMQIELFSVYGAQNVLIGMDIPVRENNQAVGDFNYSDIGIDDEV
PFDDEYFEVMDSEIYEAPVRWGMPDSADSSWVHPIYFAKCLMKAVHVEHDRKMDHPSNGVSIVG
CLRPAFADEESYLRRLFHFDYDEGYTSDWKDGEAPKPSSKYGGSKSGSILYRLEIMQIELFSVY
GAQ(+)
MVHFPVMFYMNSLHQALGKIYRMNPAAISRIWHPPTNRSLVYFRIHNLKIFIVKRNFIINPDVR
IVEVTDCLVILSYGNVHPNQNILGTIYREQFNLHYLQPIKY*(-)
MSIPIRTFWAPYTENSSICIISNR*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	44620354-44622472(+) 44621391-44622418(-) 44620362-44622426(-)
Potential amino acid sequence	MDIPVRENNQAVGDFNYSDIGIDDEVPFDDEYFEVMDSEIYEAPVRWGMPDSADSSWVHPIYFA KCLMKAVHVEHDRKMDHPSNGVSIVGCLRPAFADEESYLRRLFHFDYDEGYTSDWKDGEAPKPS SKYGGSKSGSILYRLEIMQIELFSVYGAQNVLIGMDIPVRENNQAVGDFNYSDIGIDDEVPFDD EYFEVMDSEIYEAPVRWGMPDSADSSWVHPIYFAKCLMKAVHVEHDRKMDHPSNGVSIVGCLRP AFADEESYLRRLFHFDYDEGYTSDWKDGEAPKPSSKYGGSKSGSILYRLEIMQIELFSVYGAQN VLIGMDIPVRENNQAVGDFNYSDIGIDDEVPFDDEYFEVMDSEIYEAPVRWGMPDSADSSWVHP IYFAKCLMKAVHVEHDRKMDHPSNGVSIVGCLRPAFADEESYLRRLFHFDYDEGYTSDWKDGEA PKPSSKYGGSKSGSILYRLEIMQIELFSVYGAQNVLIGMDIPVRENNQAVGDFNYSDIGIDDEV PFDDEYFEVMDSEIYEAPVRWGMPDSADSSWVHPIYFAKCLMKAVHVEHDRKMDHPSNGVSIVG CLRPAFADEESYLRRLFHFDYDEGYTSDWKDGEAPKPSSKYGGSKSGSILYRLEIMQIELFSVY GAQ(+) MVHFPVMFYMNSLHQALGKIYRMNPAAISRIWHPPTNRSLVYFRIHNLKIFIVKRNFIINPDVR IVEVTDCLVILSYGNVHPNQNILGTIYREQFNLHYLQPIKY(-) MSIPIRTFWAPYTENSSICIISNR(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Zhao et al., 2017b

circRNA

Detail information of orai.009G350800_circ_g.5

Address

Any questions?

Supported by