Plant Circular RNA Database

Detail information of BGIOSGA001450_circ_g.3

			
						 General Information
					
						CircRNA Name
						BGIOSGA001450_circ_g.3
					
						ID in PlantcircBase
						osi_circ_002125
					
						Alias
						1:22723443|22725735
					
						Organism
						
							Oryza sativa ssp. indica						
					
						Position
						
							chr1: 22723443-22725735  JBrowse»						
					
						Reference genome
						
							Oryza_indica.ASM465v1.42						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							BGIOSGA001450						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						Support reads
						NA
					
						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
						BGIOSGA001450-TA:3

General Information
CircRNA Name	BGIOSGA001450_circ_g.3
ID in PlantcircBase	osi_circ_002125
Alias	1:22723443\|22725735
Organism	Oryza sativa ssp. indica
Position	chr1: 22723443-22725735 JBrowse»
Reference genome	Oryza_indica.ASM465v1.42
Type	e-circRNA
Identification method	find_circ
Parent gene	BGIOSGA001450
Parent gene annotation	NA
Parent gene strand	-
Alternative splicing	NA
Support reads	NA
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	BGIOSGA001450-TA: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  
						
							TCAGGTGACAATACATGCACTTCCAGTGTTGTCTGTTCTCGTCGATCATTATGCCATGCTTCCA
TCCAATGTCCCTACTTTTCCAAAATGTTTCAGTCACctctttgtgttccggattatcagtttta
ttgtccatagtctgctgcttattattgtcaagtacttggcaccttccatgttccaaggtgcagt
gctcctca

									
								

					

						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
						
							CTCTTTGTGTTCCGGATTATCAGTTTTATTGTCCATAGTCTGCTGCTTATTATTGTCAAGTACT
TGGCACCTTCCATGTTCCAAGGTGCAGTGCTCCTCAGGTTGATCGCTGCTTTTCATCAGCTGTT
CACCATGGTTAAGTAGTTGGTTGCTATGTTCTGCACCCTGTTGGTTGCTTCCAGCTGCCACCTT
TTCAAACTAAGTAAACCAAAATATGCAAGTAAGTTCCAATGCTAGAAAAACATTTGTCCAAAGA
AGTGAGACAGCTATGGTACATTCTGAAGAAAGTGGGTGTGTCTGGTTTTATCCCCTTCTCGGTG
TTTAACTTGCATGAAATTTCAAGTGTAGGTCTCCAGAAGTTATTAGAAAATTGGCTAAATGTAA
TGAGGATCATTTCTCTATGGCCCTGAAGCAAGATAAAGTAATTACAGTTGTATGGGATCCACAA
AGATGTCTTGAGAACAATTTTAACTGTTTTGGCTCTATTTATCTTGCCTGTCAAATTCCATATC
TTTTATTGCGTCAATAATGAATATTTCCACTCAAATCAGTATTAACATAGGAAATGGTGGGTGC
CCTAACAGAATATGAAGCCAGTGGCAACCCTCATTGACTTGAGATGGATGTTTGCATTATGAGT
GGATGTTTCAATACTGTGCAAGGTGTGATTATCGGTGAACAACTGATAATCACTGCCTTGGGCT
GTGATGAATCTGAAATAAATTTACTGCATCTAAAGTAACATACTCAATAAGGGAGGGAACACCC
TAAAGAAAAGGATATGGGATGAATAAGACCATAATACCTCATTAATGGTGCACTCTGATGTTTG
TATATGCAAGGAATTTCCTAAAGGTTGTCGATCATCTGTCAATGGTGGAGTACCTTCCACCTGT
ATTTCTGAGAGATTAACTGCATCCTCGTCAAATTTGACATTGAAAGGAGATTTTGCAGCGCTAT
TAAAAAGATGGCGTGCTGCCCTTTTCTCTTCAATAAAGTTCAACACTTTTTTTGATATTTCCTT
AGGAATATTTGGGCAACTACTATCAGTAAGATGAGCCTTCAATGTAGTTACACCACCACTTCGA
CATAAAGAACACCACTTGCACTTCCAACGTCTTTTATTTCCATCAAGATCCACTGCATGCTCCC
ACCCAATATCTCTTATCCCTCGTAACAACATGGTAGCCTGCAAATCAATGTAAACTTTGAATTT
GAATCCATACAATATAATTGGTAGTTTATTACTGCTCAGAATAAACCAAAAAAATGTAGGATAT
AAATATTTAGTGAACAATTACAGTACTAGGGCACAAGTTACGTGTGAAAGGTTTATAGTTAGCA
GTTAATGACATGTGATTTTGCTAGTCTTTAAGGATAATAAGTTAAGAATTCACAAAGTCAAGAG
ATATGAACTCATACTTTAGTGACTATGTTGTTTTCACACATGATGGCTTTGCAGTCTCTATGAA
ATTATTTTTCTAAGTTCACTTTTCAGGGATCAAATATCTTTGCTATGACAGCTGCATAAGTACT
AGATTTTGCTGAATTAACTACTCCGTCCGTTTCACAATGTAAGACTTTCTAGCATTATCCACAC
TCATATAGATGTTAATGAATCTAGACGCACATATGAATATAGATTCATTAGTATCTATATGAAT
GTGGGCGATGCTAGAAAGTCTTACATTGTGAAACGGAGGAAGTATATAAGTTAGTAGGTACTGA
AGCATATACATAATACATTTCAAGTCCACAGGTGTATGATTGCTTACACTAATCAAACAGATGG
CAACTAAAATACTCCAGATGATGTTTTTTGTAGAGATCACACTGAGTAGAAAATGAAATAGAGA
AAAAAAAGTACCACTTTGTATACCTTGGGATAAGTAAGATCCTGATTATCATGGTTCGTTTGGT
TAGTAACTTCTTCAAGAACAGTGTCTACTACAGTCAGCACCTCTGAATCAACGGGTAAAGGATC
TTTGCCAGACTTGATATCATCAGAGGTGCTCTTAGCCGTCACACAGTTATCACGATTTTGTGCA
GCTCGCTTCTTTCGCCTTTCTCTTTTCTTCCGCAAATGCTCCCTTATTTTTTCAGAGACGTCAG
CTGGAACTTTTGGGCACATTTTGACATCCAGATCACCAGCAAGATGCCGCTTAAGTCTAGAGAC
ACCACCACCATATCTAGTCAGGTGACAATACATGCACTTCCAGTGTTGTCTGTTCTCGTCGATC
ATTATGCCATGCTTCCATCCAATGTCCCTACTTTTCCAAAATGTTTCAGTCAC
						
					

			
		

Sequences
Splice junction sequence	TCAGGTGACAATACATGCACTTCCAGTGTTGTCTGTTCTCGTCGATCATTATGCCATGCTTCCA TCCAATGTCCCTACTTTTCCAAAATGTTTCAGTCACctctttgtgttccggattatcagtttta ttgtccatagtctgctgcttattattgtcaagtacttggcaccttccatgttccaaggtgcagt gctcctca
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	CTCTTTGTGTTCCGGATTATCAGTTTTATTGTCCATAGTCTGCTGCTTATTATTGTCAAGTACT TGGCACCTTCCATGTTCCAAGGTGCAGTGCTCCTCAGGTTGATCGCTGCTTTTCATCAGCTGTT CACCATGGTTAAGTAGTTGGTTGCTATGTTCTGCACCCTGTTGGTTGCTTCCAGCTGCCACCTT TTCAAACTAAGTAAACCAAAATATGCAAGTAAGTTCCAATGCTAGAAAAACATTTGTCCAAAGA AGTGAGACAGCTATGGTACATTCTGAAGAAAGTGGGTGTGTCTGGTTTTATCCCCTTCTCGGTG TTTAACTTGCATGAAATTTCAAGTGTAGGTCTCCAGAAGTTATTAGAAAATTGGCTAAATGTAA TGAGGATCATTTCTCTATGGCCCTGAAGCAAGATAAAGTAATTACAGTTGTATGGGATCCACAA AGATGTCTTGAGAACAATTTTAACTGTTTTGGCTCTATTTATCTTGCCTGTCAAATTCCATATC TTTTATTGCGTCAATAATGAATATTTCCACTCAAATCAGTATTAACATAGGAAATGGTGGGTGC CCTAACAGAATATGAAGCCAGTGGCAACCCTCATTGACTTGAGATGGATGTTTGCATTATGAGT GGATGTTTCAATACTGTGCAAGGTGTGATTATCGGTGAACAACTGATAATCACTGCCTTGGGCT GTGATGAATCTGAAATAAATTTACTGCATCTAAAGTAACATACTCAATAAGGGAGGGAACACCC TAAAGAAAAGGATATGGGATGAATAAGACCATAATACCTCATTAATGGTGCACTCTGATGTTTG TATATGCAAGGAATTTCCTAAAGGTTGTCGATCATCTGTCAATGGTGGAGTACCTTCCACCTGT ATTTCTGAGAGATTAACTGCATCCTCGTCAAATTTGACATTGAAAGGAGATTTTGCAGCGCTAT TAAAAAGATGGCGTGCTGCCCTTTTCTCTTCAATAAAGTTCAACACTTTTTTTGATATTTCCTT AGGAATATTTGGGCAACTACTATCAGTAAGATGAGCCTTCAATGTAGTTACACCACCACTTCGA CATAAAGAACACCACTTGCACTTCCAACGTCTTTTATTTCCATCAAGATCCACTGCATGCTCCC ACCCAATATCTCTTATCCCTCGTAACAACATGGTAGCCTGCAAATCAATGTAAACTTTGAATTT GAATCCATACAATATAATTGGTAGTTTATTACTGCTCAGAATAAACCAAAAAAATGTAGGATAT AAATATTTAGTGAACAATTACAGTACTAGGGCACAAGTTACGTGTGAAAGGTTTATAGTTAGCA GTTAATGACATGTGATTTTGCTAGTCTTTAAGGATAATAAGTTAAGAATTCACAAAGTCAAGAG ATATGAACTCATACTTTAGTGACTATGTTGTTTTCACACATGATGGCTTTGCAGTCTCTATGAA ATTATTTTTCTAAGTTCACTTTTCAGGGATCAAATATCTTTGCTATGACAGCTGCATAAGTACT AGATTTTGCTGAATTAACTACTCCGTCCGTTTCACAATGTAAGACTTTCTAGCATTATCCACAC TCATATAGATGTTAATGAATCTAGACGCACATATGAATATAGATTCATTAGTATCTATATGAAT GTGGGCGATGCTAGAAAGTCTTACATTGTGAAACGGAGGAAGTATATAAGTTAGTAGGTACTGA AGCATATACATAATACATTTCAAGTCCACAGGTGTATGATTGCTTACACTAATCAAACAGATGG CAACTAAAATACTCCAGATGATGTTTTTTGTAGAGATCACACTGAGTAGAAAATGAAATAGAGA AAAAAAAGTACCACTTTGTATACCTTGGGATAAGTAAGATCCTGATTATCATGGTTCGTTTGGT TAGTAACTTCTTCAAGAACAGTGTCTACTACAGTCAGCACCTCTGAATCAACGGGTAAAGGATC TTTGCCAGACTTGATATCATCAGAGGTGCTCTTAGCCGTCACACAGTTATCACGATTTTGTGCA GCTCGCTTCTTTCGCCTTTCTCTTTTCTTCCGCAAATGCTCCCTTATTTTTTCAGAGACGTCAG CTGGAACTTTTGGGCACATTTTGACATCCAGATCACCAGCAAGATGCCGCTTAAGTCTAGAGAC ACCACCACCATATCTAGTCAGGTGACAATACATGCACTTCCAGTGTTGTCTGTTCTCGTCGATC ATTATGCCATGCTTCCATCCAATGTCCCTACTTTTCCAAAATGTTTCAGTCAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							osa_circ_002111* 						
					
						PMCS

Conservation Information
Conserved circRNAs	osa_circ_002111*
PMCS

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							22725686-22723445(-)
22723521-22725734(-)
22725527-22723583(+)
22725651-22723545(+)
						
					

						Potential amino acid sequence
						
							MIDENRQHWKCMYCHLTRYGGGVSRLKRHLAGDLDVKMCPKVPADVSEKIREHLRKKRERRKKR
AAQNRDNCVTAKSTSDDIKSGKDPLPVDSEVLTVVDTVLEEVTNQTNHDNQDLTYPKATMLLRG
IRDIGWEHAVDLDGNKRRWKCKWCSLCRSGGVTTLKAHLTDSSCPNIPKEISKKVLNFIEEKRA
ARHLFNSAAKSPFNVKFDEDAVNLSEIQVEGTPPLTDDRQPLGNSLHIQTSECTINEFEKVAAG
SNQQGAEHSNQLLNHGEQLMKSSDQPEEHCTLEHGRCQVLDNNKQQTMDNKTDNPEHKEVTETF
WKSRDIGWKHGIMIDENRQHWKCMYCHLTRYGGGVSRLKRHLAGDLDVKMCPKVPADVSEKIRE
HLRKKRERRKKRAAQNRDNCVTAKSTSDDIKSGKDPLPVDSEVLTVVDTVLEEVTNQTNHDNQD
LTYPKATMLLRGIRDIGWEHAVDLDGNKRRWKCKWCSLCRSGGVTTLKAHLTDSSCPNIPKEIS
KKVLNFIEEKRAARHLFNSAAKSPFNVKFDEDAVNLSEIQVEGTPPLTDDRQPLGNSLHIQTSE
CTINEFEKVAAGSNQQGAEHSNQLLNHGEQLMKSSDQPEEHCTLEHGRCQVLDNNKQQTMDNKT
DNPEHKEVTETFWKSRDIGWKHGIMIDENRQHWKCMYCHLTRYGGGVSRLKRHLAGDLDVKMCP
KVPADVSEKIREHLRKKRERRKKRAAQNRDNCVTAKSTSDDIKSGKDPLPVDSEVLTVVDTVLE
EVTNQTNHDNQDLTYPKATMLLRGIRDIGWEHAVDLDGNKRRWKCKWCSLCRSGGVTTLKAHLT
DSSCPNIPKEISKKVLNFIEEKRAARHLFNSAAKSPFNVKFDEDAVNLSEIQVEGTPPLTDDRQ
PLGNSLHIQTSECTINEFEKVAAGSNQQGAEHSNQLLNHGEQLMKSSDQPEEHCTLEHGRCQVL
DNNKQQTMDNKTDNPEHKEVTETFWKSRDIGWKHGIMIDENRQHWKCMYCHLTRYGGGVSRLKR
HLAGDLDVKMCPKVPADVSEKIREHLRKKRERRKKRAAQNRDNCVTAKSTSDDIKSGKDPLPVD
SEVLTVVDTVLEEVTNQTNHDNQDLTYPKATMLLRGIRDIGWEHAVDLDGNKRRWKCKWCSLCR
SGGVTTLKAHLTDSSCPNIPKEISKKVLNFIEEKRAARHLFNSAAKSPFNVKFDEDAVNLSEIQ
VEGTPPLTDDRQPLGNSLHIQTSECTINEFEKVAAGSNQQGAEHSNQLLNHGEQLMKSSDQPEE
HCTLEHGRCQVLDNNKQQTMDNKTDNPEHKE(-)
MEGAKYLTIISSRLWTIKLIIRNTKR*(-)
MLPYFFRDVSWNFWAHFDIQITSKMPLKSRDTTTISSQVTIHALPVLSVLVDHYAMLPSNVPTF
PKCFSHLFVFRIISFIVHSLLLIIVKYLAPSMFQGAVLLRLIAAFHQLFTMVK*(+)
MHFQCCLFSSIIMPCFHPMSLLFQNVSVTSLCSGLSVLLSIVCCLLLSSTWHLPCSKVQCSSG*
(+)
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	22725686-22723445(-) 22723521-22725734(-) 22725527-22723583(+) 22725651-22723545(+)
Potential amino acid sequence	MIDENRQHWKCMYCHLTRYGGGVSRLKRHLAGDLDVKMCPKVPADVSEKIREHLRKKRERRKKR AAQNRDNCVTAKSTSDDIKSGKDPLPVDSEVLTVVDTVLEEVTNQTNHDNQDLTYPKATMLLRG IRDIGWEHAVDLDGNKRRWKCKWCSLCRSGGVTTLKAHLTDSSCPNIPKEISKKVLNFIEEKRA ARHLFNSAAKSPFNVKFDEDAVNLSEIQVEGTPPLTDDRQPLGNSLHIQTSECTINEFEKVAAG SNQQGAEHSNQLLNHGEQLMKSSDQPEEHCTLEHGRCQVLDNNKQQTMDNKTDNPEHKEVTETF WKSRDIGWKHGIMIDENRQHWKCMYCHLTRYGGGVSRLKRHLAGDLDVKMCPKVPADVSEKIRE HLRKKRERRKKRAAQNRDNCVTAKSTSDDIKSGKDPLPVDSEVLTVVDTVLEEVTNQTNHDNQD LTYPKATMLLRGIRDIGWEHAVDLDGNKRRWKCKWCSLCRSGGVTTLKAHLTDSSCPNIPKEIS KKVLNFIEEKRAARHLFNSAAKSPFNVKFDEDAVNLSEIQVEGTPPLTDDRQPLGNSLHIQTSE CTINEFEKVAAGSNQQGAEHSNQLLNHGEQLMKSSDQPEEHCTLEHGRCQVLDNNKQQTMDNKT DNPEHKEVTETFWKSRDIGWKHGIMIDENRQHWKCMYCHLTRYGGGVSRLKRHLAGDLDVKMCP KVPADVSEKIREHLRKKRERRKKRAAQNRDNCVTAKSTSDDIKSGKDPLPVDSEVLTVVDTVLE EVTNQTNHDNQDLTYPKATMLLRGIRDIGWEHAVDLDGNKRRWKCKWCSLCRSGGVTTLKAHLT DSSCPNIPKEISKKVLNFIEEKRAARHLFNSAAKSPFNVKFDEDAVNLSEIQVEGTPPLTDDRQ PLGNSLHIQTSECTINEFEKVAAGSNQQGAEHSNQLLNHGEQLMKSSDQPEEHCTLEHGRCQVL DNNKQQTMDNKTDNPEHKEVTETFWKSRDIGWKHGIMIDENRQHWKCMYCHLTRYGGGVSRLKR HLAGDLDVKMCPKVPADVSEKIREHLRKKRERRKKRAAQNRDNCVTAKSTSDDIKSGKDPLPVD SEVLTVVDTVLEEVTNQTNHDNQDLTYPKATMLLRGIRDIGWEHAVDLDGNKRRWKCKWCSLCR SGGVTTLKAHLTDSSCPNIPKEISKKVLNFIEEKRAARHLFNSAAKSPFNVKFDEDAVNLSEIQ VEGTPPLTDDRQPLGNSLHIQTSECTINEFEKVAAGSNQQGAEHSNQLLNHGEQLMKSSDQPEE HCTLEHGRCQVLDNNKQQTMDNKTDNPEHKE(-) MEGAKYLTIISSRLWTIKLIIRNTKR(-) MLPYFFRDVSWNFWAHFDIQITSKMPLKSRDTTTISSQVTIHALPVLSVLVDHYAMLPSNVPTF PKCFSHLFVFRIISFIVHSLLLIIVKYLAPSMFQGAVLLRLIAAFHQLFTMVK(+) MHFQCCLFSSIIMPCFHPMSLLFQNVSVTSLCSGLSVLLSIVCCLLLSSTWHLPCSKVQCSSG* (+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Huang et al., 2021

circRNA

Detail information of BGIOSGA001450_circ_g.3

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