Plant Circular RNA Database

Detail information of orai.009G011200_circ_g.1

			
						 General Information
					
						CircRNA Name
						orai.009G011200_circ_g.1
					
						ID in PlantcircBase
						gra_circ_000912
					
						Alias
						Chr09:904112|906286
					
						Organism
						
							Gossypium raimondii						
					
						Position
						
							chrChr09: 904112-906286  JBrowse»						
					
						Reference genome
						
							Graimondii_221						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							Gorai.009G011200						
					
						Parent gene annotation
						
							NA							
					
						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
						Gorai.009G011200.4:5
Gorai.009G011200.3:5
Gorai.009G011200.1:4
Gorai.009G011200.2:4

General Information
CircRNA Name	orai.009G011200_circ_g.1
ID in PlantcircBase	gra_circ_000912
Alias	Chr09:904112\|906286
Organism	Gossypium raimondii
Position	chrChr09: 904112-906286 JBrowse»
Reference genome	Graimondii_221
Type	e-circRNA
Identification method	CIRI
Parent gene	Gorai.009G011200
Parent gene annotation	NA
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	Gorai.009G011200.4:5 Gorai.009G011200.3:5 Gorai.009G011200.1:4 Gorai.009G011200.2:4

			
						 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  
						
							CTCTTACTTCCAGCCAAACTGTTGTTTATATCTGGCCCGGATATTTCACTCCTTGGACCATAGT
ATGGAATCCCCTCAAGATGATTACCAGCCTGCCTTTctgtttgtatcgggattcgttcaccgga
accagttgcttgacttgcattaccagtaacagccatctttccccgaagttcacgtgagaaagca
atgcttcc

									
								

					

						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: 912
Transcript exons: 904112-904331,905376-905463,905560-906002,906126-906286
CTGTTTGTATCGGGATTCGTTCACCGGAACCAGTTGCTTGACTTGCATTACCAGTAACAGCCAT
CTTTCCCCGAAGTTCACGTGAGAAAGCAATGCTTCCTACTGCTTCAGGTTCCCCGCCGGGTGCA
TAATTTTCCCCTGTCCTCACAGCAGATTTAGGAGAGTAGGTTGTCGACCAAGATCCTCCATTTG
ATCCAGCCAATGCCATTATTACATCTGCCTTGTTCGGGTGCACATCATCAAAGACGTGAGCCTG
ACCACCATAAAATATAGTCATTTGTCGGCTGGCAGATGTTAATCCCTGTCGACTCGGAGGAACT
AAAGGCTCGGGATCTGAATTATGAGCCCCAGTCTTAGGCCTGCCCCCACTTGGCACTATCGCAG
ATGAACCCTTTTCAGTGGGAACACCGCTAGCATTAATAGAACTCAAAATTCCAGGGCCTTTAAT
TCCAGTTCTAGATCCTTCATCGGCAGCTGCTTGAGAGATAACAGAAGGACCAACAGTTGTATCC
TTGAACCTGTTTGAAGATACTTGATGCACAAAAGGCACAAAGTGACCACCACGAGAAGCATACT
GTACTGCTGAGGGGACAGACCGTTCCCATTTGGAAGCATTACCTTCAAGTCGGCTACCAGCGGG
AGGCTGCAATATAAGAGATGTAGAAGAAGGCCTCATTGACTTCATACCAAGGAATACTTCGTCC
TCGTTGGACCTTCTAGGCCGCTCTCCTCCAGCCCCATTGCGAAGCATCTTCATCAAATGCAAGC
TCTCAAGAGATTCATGACCCATAAAGGCCGAATCTGAAAAACTTCTCTTACTTCCAGCCAAACT
GTTGTTTATATCTGGCCCGGATATTTCACTCCTTGGACCATAGTATGGAATCCCCTCAAGATGA
TTACCAGCCTGCCTTT
						
					

						Genomic sequence
						
							CTGTTTGTATCGGGATTCGTTCACCGGAACCAGTTGCTTGACTTGCATTACCAGTAACAGCCAT
CTTTCCCCGAAGTTCACGTGAGAAAGCAATGCTTCCTACTGCTTCAGGTTCCCCGCCGGGTGCA
TAATTTTCCCCTGTCCTCACAGCAGATTTAGGAGAGTAGGTTGTCGACCAAGATCCTCCATTTG
ATCCAGCCAATGCCATTATTACATCTGCCTGAAATGACCATGCAGCATATAGTTGTCATGACCA
GAAATGCATATTAAGAAACAAAATACCAGACACGATATTGATGTGAAAACGAAATTCTCGAATG
ATATCTTCTAAGATTCCATAGCTATCAGACATAAAACTGTTCCCATAGCTGAAACACCCGAGAA
ATGTTGCTCGGACTGGAGCTCAGAACAGTGATTACAGATTCCTATGTCTCACAATCTTCAGTTT
CTCAGTAATCAAACTAGTTATTTCTTATCGAAAGAACACTATATATAACATCATGTCATCCAGT
AGTACCCACATTATTAAATCCCGGATAGTTAAATTTGCACTTGTAGAACCCAAATAACACGGTC
CTATTTTCTAAGGCTTCATTTTGAAGCCAATGGACCTGTGGTACAGTGCAATTGAGCACCTTTA
TGCCGCAACCACGTGCTATCTTCTAAACTAGCTTTAATGGTAAGTATGTGTTATCCATCCAAGG
GATAATGGTAGCTCCATTTCCTAGAGTAAAGGACATCATAATCAAAGGTGATGACAGGCCCCTC
TTATGTAGCTTTAAAAATAGGATTCCGTTATTTGGACAAGTTGACCACAATATGTCCCCCTAAC
CCAGCTAGAGAATTGACAACATATTTGAAGGAGCACATCACATGTTCATTCCTCCTATTCTCCC
AGACGTATTGATATCAGAAGAATCCATATGGCAATCTCATCTGATGTTTCACAAAACATGATGA
CGTATCAAATATTAAGGAAACTTCTAAGTTCTAATATCCATGAATAAGGACGTAGGTCTAATCT
CGGGTTATAATATGCATGGTGTTAAGCTCAATGGTTATCTTATGCATTTGAAACCTAGTTGCAT
TTGCAATTCATGGATTATATAACGTAATTACAATATCAACTTAGCTTAGCTGATATAGGGCTGA
ATGTTCAATTAGATAAAATACTTGAATCAGAAAGAAGTTGATAAGAAAGCTTGTCGAGAAACAA
TTGATATTAAAAAACTTGAGGTCCATTAGCAAACAAGAGGAAACTGACCTTGTTCGGGTGCACA
TCATCAAAGACGTGAGCCTGACCACCATAAAATATAGTCATTTGTCGGCTGGCAGATGTTAATC
CCTGTCGACTGTAACAAAGAAAAGAGCATTGAATTTATTCTGGTTTTTTTTCTTTGCAGAGCAC
AACAATCAAAAGCAAGAAACAAAGATTATATTATATTCACCTCGGAGGAACTAAAGGCTCGGGA
TCTGAATTATGAGCCCCAGTCTTAGGCCTGCCCCCACTTGGCACTATCGCAGATGAACCCTTTT
CAGTGGGAACACCGCTAGCATTAATAGAACTCAAAATTCCAGGGCCTTTAATTCCAGTTCTAGA
TCCTTCATCGGCAGCTGCTTGAGAGATAACAGAAGGACCAACAGTTGTATCCTTGAACCTGTTT
GAAGATACTTGATGCACAAAAGGCACAAAGTGACCACCACGAGAAGCATACTGTACTGCTGAGG
GGACAGACCGTTCCCATTTGGAAGCATTACCTTCAAGTCGGCTACCAGCGGGAGGCTGCAATAT
AAGAGATGTAGAAGAAGGCCTCATTGACTTCATACCAAGGAATACTTCGTCCTCGTTGGACCTT
CTAGGCCGCTCTCCTCCAGCCCCATTGCGAAGCATCTGAAATACAAACAATAAAGAAAATTATT
TAGTACATATGAACGACTAATAACAACTAAAGCTTCACTTTCACTTTGAGAAAAAAGAAGTAAA
ACAAGATAAGATACAATATAGATGATATACCTTCATCAAATGCAAGCTCTCAAGAGATTCATGA
CCCATAAAGGCCGAATCTGAAAAACTTCTCTTACTTCCAGCCAAACTGTTGTTTATATCTGGCC
CGGATATTTCACTCCTTGGACCATAGTATGGAATCCCCTCAAGATGATTACCAGCCTGCCTTT
						
					

			
		

Sequences
Splice junction sequence	CTCTTACTTCCAGCCAAACTGTTGTTTATATCTGGCCCGGATATTTCACTCCTTGGACCATAGT ATGGAATCCCCTCAAGATGATTACCAGCCTGCCTTTctgtttgtatcgggattcgttcaccgga accagttgcttgacttgcattaccagtaacagccatctttccccgaagttcacgtgagaaagca atgcttcc
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: 912 Transcript exons: 904112-904331,905376-905463,905560-906002,906126-906286 CTGTTTGTATCGGGATTCGTTCACCGGAACCAGTTGCTTGACTTGCATTACCAGTAACAGCCAT CTTTCCCCGAAGTTCACGTGAGAAAGCAATGCTTCCTACTGCTTCAGGTTCCCCGCCGGGTGCA TAATTTTCCCCTGTCCTCACAGCAGATTTAGGAGAGTAGGTTGTCGACCAAGATCCTCCATTTG ATCCAGCCAATGCCATTATTACATCTGCCTTGTTCGGGTGCACATCATCAAAGACGTGAGCCTG ACCACCATAAAATATAGTCATTTGTCGGCTGGCAGATGTTAATCCCTGTCGACTCGGAGGAACT AAAGGCTCGGGATCTGAATTATGAGCCCCAGTCTTAGGCCTGCCCCCACTTGGCACTATCGCAG ATGAACCCTTTTCAGTGGGAACACCGCTAGCATTAATAGAACTCAAAATTCCAGGGCCTTTAAT TCCAGTTCTAGATCCTTCATCGGCAGCTGCTTGAGAGATAACAGAAGGACCAACAGTTGTATCC TTGAACCTGTTTGAAGATACTTGATGCACAAAAGGCACAAAGTGACCACCACGAGAAGCATACT GTACTGCTGAGGGGACAGACCGTTCCCATTTGGAAGCATTACCTTCAAGTCGGCTACCAGCGGG AGGCTGCAATATAAGAGATGTAGAAGAAGGCCTCATTGACTTCATACCAAGGAATACTTCGTCC TCGTTGGACCTTCTAGGCCGCTCTCCTCCAGCCCCATTGCGAAGCATCTTCATCAAATGCAAGC TCTCAAGAGATTCATGACCCATAAAGGCCGAATCTGAAAAACTTCTCTTACTTCCAGCCAAACT GTTGTTTATATCTGGCCCGGATATTTCACTCCTTGGACCATAGTATGGAATCCCCTCAAGATGA TTACCAGCCTGCCTTT
Genomic sequence	CTGTTTGTATCGGGATTCGTTCACCGGAACCAGTTGCTTGACTTGCATTACCAGTAACAGCCAT CTTTCCCCGAAGTTCACGTGAGAAAGCAATGCTTCCTACTGCTTCAGGTTCCCCGCCGGGTGCA TAATTTTCCCCTGTCCTCACAGCAGATTTAGGAGAGTAGGTTGTCGACCAAGATCCTCCATTTG ATCCAGCCAATGCCATTATTACATCTGCCTGAAATGACCATGCAGCATATAGTTGTCATGACCA GAAATGCATATTAAGAAACAAAATACCAGACACGATATTGATGTGAAAACGAAATTCTCGAATG ATATCTTCTAAGATTCCATAGCTATCAGACATAAAACTGTTCCCATAGCTGAAACACCCGAGAA ATGTTGCTCGGACTGGAGCTCAGAACAGTGATTACAGATTCCTATGTCTCACAATCTTCAGTTT CTCAGTAATCAAACTAGTTATTTCTTATCGAAAGAACACTATATATAACATCATGTCATCCAGT AGTACCCACATTATTAAATCCCGGATAGTTAAATTTGCACTTGTAGAACCCAAATAACACGGTC CTATTTTCTAAGGCTTCATTTTGAAGCCAATGGACCTGTGGTACAGTGCAATTGAGCACCTTTA TGCCGCAACCACGTGCTATCTTCTAAACTAGCTTTAATGGTAAGTATGTGTTATCCATCCAAGG GATAATGGTAGCTCCATTTCCTAGAGTAAAGGACATCATAATCAAAGGTGATGACAGGCCCCTC TTATGTAGCTTTAAAAATAGGATTCCGTTATTTGGACAAGTTGACCACAATATGTCCCCCTAAC CCAGCTAGAGAATTGACAACATATTTGAAGGAGCACATCACATGTTCATTCCTCCTATTCTCCC AGACGTATTGATATCAGAAGAATCCATATGGCAATCTCATCTGATGTTTCACAAAACATGATGA CGTATCAAATATTAAGGAAACTTCTAAGTTCTAATATCCATGAATAAGGACGTAGGTCTAATCT CGGGTTATAATATGCATGGTGTTAAGCTCAATGGTTATCTTATGCATTTGAAACCTAGTTGCAT TTGCAATTCATGGATTATATAACGTAATTACAATATCAACTTAGCTTAGCTGATATAGGGCTGA ATGTTCAATTAGATAAAATACTTGAATCAGAAAGAAGTTGATAAGAAAGCTTGTCGAGAAACAA TTGATATTAAAAAACTTGAGGTCCATTAGCAAACAAGAGGAAACTGACCTTGTTCGGGTGCACA TCATCAAAGACGTGAGCCTGACCACCATAAAATATAGTCATTTGTCGGCTGGCAGATGTTAATC CCTGTCGACTGTAACAAAGAAAAGAGCATTGAATTTATTCTGGTTTTTTTTCTTTGCAGAGCAC AACAATCAAAAGCAAGAAACAAAGATTATATTATATTCACCTCGGAGGAACTAAAGGCTCGGGA TCTGAATTATGAGCCCCAGTCTTAGGCCTGCCCCCACTTGGCACTATCGCAGATGAACCCTTTT CAGTGGGAACACCGCTAGCATTAATAGAACTCAAAATTCCAGGGCCTTTAATTCCAGTTCTAGA TCCTTCATCGGCAGCTGCTTGAGAGATAACAGAAGGACCAACAGTTGTATCCTTGAACCTGTTT GAAGATACTTGATGCACAAAAGGCACAAAGTGACCACCACGAGAAGCATACTGTACTGCTGAGG GGACAGACCGTTCCCATTTGGAAGCATTACCTTCAAGTCGGCTACCAGCGGGAGGCTGCAATAT AAGAGATGTAGAAGAAGGCCTCATTGACTTCATACCAAGGAATACTTCGTCCTCGTTGGACCTT CTAGGCCGCTCTCCTCCAGCCCCATTGCGAAGCATCTGAAATACAAACAATAAAGAAAATTATT TAGTACATATGAACGACTAATAACAACTAAAGCTTCACTTTCACTTTGAGAAAAAAGAAGTAAA ACAAGATAAGATACAATATAGATGATATACCTTCATCAAATGCAAGCTCTCAAGAGATTCATGA CCCATAAAGGCCGAATCTGAAAAACTTCTCTTACTTCCAGCCAAACTGTTGTTTATATCTGGCC CGGATATTTCACTCCTTGGACCATAGTATGGAATCCCCTCAAGATGATTACCAGCCTGCCTTT

			
						 Conservation Information
					
						Conserved circRNAs
						
							ghi_circ_000059* 						
					
						PMCS
						0.77190641

Conservation Information
Conserved circRNAs	ghi_circ_000059*
PMCS	0.77190641

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							904160-906214(-)
906165-904114(-)
906251-904165(+)
906267-904193(+)
						
					

						Potential amino acid sequence
						
							MQVKQLVPVNESRYKQKGRLVIILRGFHTMVQGVKYPGQI*(-)
MGHESLESLHLMKMLRNGAGGERPRRSNEDEVFLGMKSMRPSSTSLILQPPAGSRLEVSSNRFK
DTTVGPSVISQAAADEGSRTGIKGPGILSSINASGVPTEKGSSAIVPSGGRPKTGAHNSDPEPL
VPPSRQGLTSASRQMTIFYGGQAHVFDDVHPNKADVIMALAGSNGGSWSTTYSPKSAVRTGENY
APGGEPEAVGSIAFSRELRGKMAVTGNASQATGSGERIPIQTERQAGNHLEGIPYYGPRSEISG
PDINNSLAGSKRSFSDSAFMGHESLESLHLMKMLRNGAGGERPRRSNEDEVFLGMKSMRPSSTS
LILQPPAGSRLEVSSNRFKDTTVGPSVISQAAADEGSRTGIKGPGILSSINASGVPTEKGSSAI
VPSGGRPKTGAHNSDPEPLVPPSRQGLTSASRQMTIFYGGQAHVFDDVHPNKADVIMALAGSNG
GSWSTTYSPKSAVRTGENYAPGGEPEAVGSIAFSRELRGKMAVTGNASQATGSGERIPIQTERQ
AGNHLEGIPYYGPRSEISGPDINNSLAGSKRSFSDSAFMGHESLESLHLMKMLRNGAGGERPRR
SNEDEVFLGMKSMRPSSTSLILQPPAGSRLEVSSNRFKDTTVGPSVISQAAADEGSRTGIKGPG
ILSSINASGVPTEKGSSAIVPSGGRPKTGAHNSDPEPLVPPSRQGLTSASRQMTIFYGGQAHVF
DDVHPNKADVIMALAGSNGGSWSTTYSPKSAVRTGENYAPGGEPEAVGSIAFSRELRGKMAVTG
NASQATGSGERIPIQTERQAGNHLEGIPYYGPRSEISGPDINNSLAGSKRSFSDSAFMGHESLE
SLHLMKMLRNGAGGERPRRSNEDEVFLGMKSMRPSSTSLILQPPAGSRLEVSSNRFKDTTVGPS
VISQAAADEGSRTGIKGPGILSSINASGVPTEKGSSAIVPSGGRPKTGAHNSDPEPLVPPSRQG
LTSASRQMTIFYGGQAHVFDDVHPNKADVIMALAGSNGGSWSTTYSPKSAVRTGENYAPGGEPE
AVGSIAFSRELRGKMAVTGNASQATGSGERIPIQT(-)
MESPQDDYQPAFLFVSGFVHRNQLLDLHYQ*(+)
MITSLPFCLYRDSFTGTSCLTCITSNSHLSPKFT*(+)
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	904160-906214(-) 906165-904114(-) 906251-904165(+) 906267-904193(+)
Potential amino acid sequence	MQVKQLVPVNESRYKQKGRLVIILRGFHTMVQGVKYPGQI(-) MGHESLESLHLMKMLRNGAGGERPRRSNEDEVFLGMKSMRPSSTSLILQPPAGSRLEVSSNRFK DTTVGPSVISQAAADEGSRTGIKGPGILSSINASGVPTEKGSSAIVPSGGRPKTGAHNSDPEPL VPPSRQGLTSASRQMTIFYGGQAHVFDDVHPNKADVIMALAGSNGGSWSTTYSPKSAVRTGENY APGGEPEAVGSIAFSRELRGKMAVTGNASQATGSGERIPIQTERQAGNHLEGIPYYGPRSEISG PDINNSLAGSKRSFSDSAFMGHESLESLHLMKMLRNGAGGERPRRSNEDEVFLGMKSMRPSSTS LILQPPAGSRLEVSSNRFKDTTVGPSVISQAAADEGSRTGIKGPGILSSINASGVPTEKGSSAI VPSGGRPKTGAHNSDPEPLVPPSRQGLTSASRQMTIFYGGQAHVFDDVHPNKADVIMALAGSNG GSWSTTYSPKSAVRTGENYAPGGEPEAVGSIAFSRELRGKMAVTGNASQATGSGERIPIQTERQ AGNHLEGIPYYGPRSEISGPDINNSLAGSKRSFSDSAFMGHESLESLHLMKMLRNGAGGERPRR SNEDEVFLGMKSMRPSSTSLILQPPAGSRLEVSSNRFKDTTVGPSVISQAAADEGSRTGIKGPG ILSSINASGVPTEKGSSAIVPSGGRPKTGAHNSDPEPLVPPSRQGLTSASRQMTIFYGGQAHVF DDVHPNKADVIMALAGSNGGSWSTTYSPKSAVRTGENYAPGGEPEAVGSIAFSRELRGKMAVTG NASQATGSGERIPIQTERQAGNHLEGIPYYGPRSEISGPDINNSLAGSKRSFSDSAFMGHESLE SLHLMKMLRNGAGGERPRRSNEDEVFLGMKSMRPSSTSLILQPPAGSRLEVSSNRFKDTTVGPS VISQAAADEGSRTGIKGPGILSSINASGVPTEKGSSAIVPSGGRPKTGAHNSDPEPLVPPSRQG LTSASRQMTIFYGGQAHVFDDVHPNKADVIMALAGSNGGSWSTTYSPKSAVRTGENYAPGGEPE AVGSIAFSRELRGKMAVTGNASQATGSGERIPIQT(-) MESPQDDYQPAFLFVSGFVHRNQLLDLHYQ(+) MITSLPFCLYRDSFTGTSCLTCITSNSHLSPKFT*(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Zhao et al., 2017b

circRNA

Detail information of orai.009G011200_circ_g.1

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