Plant Circular RNA Database

Detail information of Os10g0320400_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os10g0320400_circ_g.1
					
						ID in PlantcircBase
						osa_circ_006454
					
						Alias
						Os_ciR6993
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr10: 8693059-8696451  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os10g0320400						
					
						Parent gene annotation
						
							Similar to ATP synthase gamma chain, mitochondrial precursor (EC
 3.6.3.14). (Os10t0320400-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os10g0320400_circ_igg.1 Os10g0320400_circ_g.2 Os10g0320400_circ_g.3 Os10g0320400_circ_g.4 Os10g0320400_circ_g.5 Os10g0320400_circ_g.6 Os10g0320400_circ_g.7 Os10g0320400_circ_g.8 						
					
						Support reads
						2/1
					
						Tissues
						root/root
					
						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  
						
							GT-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
						Os10t0320400-01:6

General Information
CircRNA Name	Os10g0320400_circ_g.1
ID in PlantcircBase	osa_circ_006454
Alias	Os_ciR6993
Organism	Oryza sativa
Position	chr10: 8693059-8696451 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os10g0320400
Parent gene annotation	Similar to ATP synthase gamma chain, mitochondrial precursor (EC 3.6.3.14). (Os10t0320400-01)
Parent gene strand	+
Alternative splicing	Os10g0320400_circ_igg.1 Os10g0320400_circ_g.2 Os10g0320400_circ_g.3 Os10g0320400_circ_g.4 Os10g0320400_circ_g.5 Os10g0320400_circ_g.6 Os10g0320400_circ_g.7 Os10g0320400_circ_g.8
Support reads	2/1
Tissues	root/root
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	GT-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	Os10t0320400-01:6

			
						 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  
						
							AGAATGCATGCAGTGAGCTTGGAGCACGTATGTCTGCCATGGACAGCTCCAGCAGAAACGCTGG
TGAAATGCTTGATCGACTCACCCTCACATACAACAGtgagaacccgcatgaagagtgttaggaa
catccagaagattacaaaagcaatgaagatggttgcagcatcaaagcttcgagctgttcaaata
agaacaga

									
								

					

						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
						
							TGAGAACCCGCATGAAGAGTGTTAGGAACATCCAGAAGATTACAAAAGCAATGAAGATGGTTGC
AGCATCAAAGCTTCGAGCTGTTCAAATAAGAACAGAAAATTCACGTGGTCTATGGCAGCCATTC
ACCGCTCTTCTTGGGGATGTCCCTAGTATGTTATGTTTCGTTGTAGTACATATTTACAGTACCT
TTCTGCCGTAGTTATTATAGCTAAAGTTGATGCCTATCTTATTGAATGTCATGATATGCTAGAA
GCCTATGGCTACATTAGCATGCCTGGCTGCCACAAATCAAATGTACAACCTTATTCATGATCTA
GGAAGTTCATTTGATGTTGGTTCTTAAAAGTCAATGGCATTCAAGGTAAGAGATATTTGATGGT
GGGTAATTATCCCTGGTAAAGAAATATGTAGATATATATACTATGGGTGAATCTTCTGAGCTAT
TGGTTCAGTGGTGTAAGCATGGACTCTACATCTATTTACTAGACACGCTTCTCACTAATTTATA
AATGCACCACAGGTCTCATGCCACTTCTAATGATGCTGTGATCCTCAATTCATGAGGAAACATT
GATAGGCTTGCCTGTTGAGTTTACTCCATGCTTGGATCTGTCTAAATTATTTAATTCTTACGGA
ACAGCAGTTTTAATTTAACTGAATTAGATTGACATCATGTCTTTTTGGCAATAAGATTATTGAG
TTTTTGGTTTAGTTATTAATGTCTTTGATGCAACCACCAGGTGTCGATGTCAAGAAGAATGTTA
TTGTAGCCATTACCTCTGACAAGGGTCTTTGTGGTGGTATCAACTCAACGTCAGTTAAAGTCAG
CAAAGCACTCCACAAGTTGACTTCTGGTAATACTTTGCATGGTTATTTTTGTTATCATTTAAAC
ATTAGAAGATACTAAAACAAAGTTTTTGCACCTCAAATCAGGACCAGAGAAAGAAAGCAAGTAT
GTCATATTAGGAGAAAAGGGTAAAGTTCAACTCATTCGTGACTCCAAGGATAACATCGAGATGA
CAGTATCTGAGTTGCAGAAGAACCCTATCAACTACACACAGGTATGTTGTTTTCCTGAGCTTTT
ACTATGCTATGGGTGCACCTTTTATTATGAAATGCTATTCATTATTTGTGAATTTGTTTCTGAA
TTAAGTCTAAAGTTTGGCAATTGAAAACTGTTTTGTAGTTTCTTATATTGTCAGTGAATTTTGC
TCTCGAATTTTGAATTTTGCAAGAGAAGCATTCCTAATGTAAAAGGAATTCTGTCATGTCACAT
TGGACTTCTGATTTGGAACACATTTCAATTTGTCAATGACTAATCTCTGTTATTATAGCCAAAA
TATATATACTGATTTATCAATCTAAAATTTTACCAAATCAGACTCACTTCAGCCCACTCCGACT
GTACCTTCCATTCCTTTTTCTCCATACTTTCTCCTGTTGCTGGCAAGCTGGGGCTAAGACTTGT
TACAGAAAATCACTCTTTGAGATACTCGAATGAGACATAGACATGATTGATCATCAAATGATGT
GTTCCTCTTGTGTTTTAATAGTAACACTAGTTAGGGACTAGGAATAAGGCAATGATGTTGGAGC
TATTGCAAGCAATGAGGCAGGGGAAGGGAGCCTGGTGCCATCTTGGGAGGCTCCCTGTTTCAAT
ATTTCCTTAAGCCAGCCACCACTACCTGGGTTCTCTAAGGCTGTCACCTGTCCTGTCCTGCTGA
TGTGTCCACCTGTGCCACTGAATCACAGCTGCTATGTTGGGGGCTGACACAGCTGCCATATTGG
ATCTGACTTGGTTTTGCTGGCCCTAGTTGGTGGGGAAAAAGGTCTGATAAGGGGATGGAGCATC
AACCTGTGCTGAAAAAGTGGGAGGAGGGTACGGTAGTCAAGTTGCATGGCTAGTCATGGACCAA
TTGACAAGTCAGCCACAGAGCACGACTTGAGGGCTACAATTTGATTTGGGAAACTTGGAATACG
AGATAAGAGGAGAGCTGTTCAGTTTTCTCCTCCATATATGATTAGAGGTAGCCACCGGAGTCTG
AGTAAGATTAGAGGGAGCACCAATAGTTGCACACCTGCTTTCCTCATCTGCTCCCTGTTTTTTC
TGACCTCACTTCTAATGTACCAACTCAAAGGCTTGTCTTTGACTAAGTCATGATTAGTCCTCAA
GTTGGTTTAGGTCTTGAGGGATGACTAGACTGACTGTGCGACTAACAACCATGGCTGAAGAATA
GCACATCGGCATGGAGAAATGTGAAATATAGTGATGGATCTCATTGCTGTAGGATAAGGAATGG
CACTGGTGGTGGCGCAAAGTTGTGCAGTTAGCAGAATTAGTTTCAGCTGTGTTAATTACGTTGC
AGCAGAAGTTCACGGATGTGGTATATTTCAATGAAACAAGAGAGGATTATGGTACTAGATGATG
TGTGAGAAGAAAGTGTTTTTTAGATTTAAGCTTCTAGTTATGCTGTAGGTTGAAATATCTCATT
TTCCTTTGCAAAGAAAGATGATCTGGATCATATTCATCTTTTGTTATGTGTGCACGCATTGCAA
TATATCATAGCAGCTGGTATGATTTGAACAAAATTTGCTAACAAACCCTGAACTGTAAAAAGTC
TTATGTTGTCTGACTTCCTTGAAATGTCTTCAGGGAAGTTTTTGTTCAGTCGATTATTATTTGG
TGGCTAAAGCAGATTTCAAAAACCTAATGTGCCTATTGGATTGAATAGATCTCCACTGTTTTCT
TTGATGATGTTTCAGATTGCTGTGCTGGCAGATGATATCTTGAAAAATGTTGAGTATGATGCTC
TAAGGGTTGTTTTTAACAAGTTCCACTCGGTCATATCATTCAAGCCCACAATGACAACCATACT
TTCCCCAGAGGTAAATATCGGTGCTGAGGACATGAATTTGTGCTCCTATAAAGTAATATGAATG
ATGTGACGTTAATACTAGTGGTTTGAATTGTTTTATAGGTTATGGAGAAAGAATCGGAATCTGG
TAAGGTTGGTGACCTGGATTCATATGAAATTGAAGGAGGTGAAACTAAATCAGAAATTCTTCAG
AATCTTACCGAGTTCCAGTTTTCTTGTGTAAGTTTGTCTTCATTAATCATATATACCTCTCAAT
AGATGAATTAGCTACAACTATTACAGCCACAAAATCAAGTCGCATCCATAAGGGTAAACGTTCC
CTTTGTAGAGAGCGCAATCATTCTTTTTTCAAGGTATCCTAGTGGTATCTTATGTTTTTGCTTT
GTGGCAGGTTATGTATAATGCTGCTCTAGAGAATGCATGCAGTGAGCTTGGAGCACGTATGTCT
GCCATGGACAGCTCCAGCAGAAACGCTGGTGAAATGCTTGATCGACTCACCCTCACATACAACA
G
						
					

			
		

Sequences
Splice junction sequence	AGAATGCATGCAGTGAGCTTGGAGCACGTATGTCTGCCATGGACAGCTCCAGCAGAAACGCTGG TGAAATGCTTGATCGACTCACCCTCACATACAACAGtgagaacccgcatgaagagtgttaggaa catccagaagattacaaaagcaatgaagatggttgcagcatcaaagcttcgagctgttcaaata agaacaga
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	TGAGAACCCGCATGAAGAGTGTTAGGAACATCCAGAAGATTACAAAAGCAATGAAGATGGTTGC AGCATCAAAGCTTCGAGCTGTTCAAATAAGAACAGAAAATTCACGTGGTCTATGGCAGCCATTC ACCGCTCTTCTTGGGGATGTCCCTAGTATGTTATGTTTCGTTGTAGTACATATTTACAGTACCT TTCTGCCGTAGTTATTATAGCTAAAGTTGATGCCTATCTTATTGAATGTCATGATATGCTAGAA GCCTATGGCTACATTAGCATGCCTGGCTGCCACAAATCAAATGTACAACCTTATTCATGATCTA GGAAGTTCATTTGATGTTGGTTCTTAAAAGTCAATGGCATTCAAGGTAAGAGATATTTGATGGT GGGTAATTATCCCTGGTAAAGAAATATGTAGATATATATACTATGGGTGAATCTTCTGAGCTAT TGGTTCAGTGGTGTAAGCATGGACTCTACATCTATTTACTAGACACGCTTCTCACTAATTTATA AATGCACCACAGGTCTCATGCCACTTCTAATGATGCTGTGATCCTCAATTCATGAGGAAACATT GATAGGCTTGCCTGTTGAGTTTACTCCATGCTTGGATCTGTCTAAATTATTTAATTCTTACGGA ACAGCAGTTTTAATTTAACTGAATTAGATTGACATCATGTCTTTTTGGCAATAAGATTATTGAG TTTTTGGTTTAGTTATTAATGTCTTTGATGCAACCACCAGGTGTCGATGTCAAGAAGAATGTTA TTGTAGCCATTACCTCTGACAAGGGTCTTTGTGGTGGTATCAACTCAACGTCAGTTAAAGTCAG CAAAGCACTCCACAAGTTGACTTCTGGTAATACTTTGCATGGTTATTTTTGTTATCATTTAAAC ATTAGAAGATACTAAAACAAAGTTTTTGCACCTCAAATCAGGACCAGAGAAAGAAAGCAAGTAT GTCATATTAGGAGAAAAGGGTAAAGTTCAACTCATTCGTGACTCCAAGGATAACATCGAGATGA CAGTATCTGAGTTGCAGAAGAACCCTATCAACTACACACAGGTATGTTGTTTTCCTGAGCTTTT ACTATGCTATGGGTGCACCTTTTATTATGAAATGCTATTCATTATTTGTGAATTTGTTTCTGAA TTAAGTCTAAAGTTTGGCAATTGAAAACTGTTTTGTAGTTTCTTATATTGTCAGTGAATTTTGC TCTCGAATTTTGAATTTTGCAAGAGAAGCATTCCTAATGTAAAAGGAATTCTGTCATGTCACAT TGGACTTCTGATTTGGAACACATTTCAATTTGTCAATGACTAATCTCTGTTATTATAGCCAAAA TATATATACTGATTTATCAATCTAAAATTTTACCAAATCAGACTCACTTCAGCCCACTCCGACT GTACCTTCCATTCCTTTTTCTCCATACTTTCTCCTGTTGCTGGCAAGCTGGGGCTAAGACTTGT TACAGAAAATCACTCTTTGAGATACTCGAATGAGACATAGACATGATTGATCATCAAATGATGT GTTCCTCTTGTGTTTTAATAGTAACACTAGTTAGGGACTAGGAATAAGGCAATGATGTTGGAGC TATTGCAAGCAATGAGGCAGGGGAAGGGAGCCTGGTGCCATCTTGGGAGGCTCCCTGTTTCAAT ATTTCCTTAAGCCAGCCACCACTACCTGGGTTCTCTAAGGCTGTCACCTGTCCTGTCCTGCTGA TGTGTCCACCTGTGCCACTGAATCACAGCTGCTATGTTGGGGGCTGACACAGCTGCCATATTGG ATCTGACTTGGTTTTGCTGGCCCTAGTTGGTGGGGAAAAAGGTCTGATAAGGGGATGGAGCATC AACCTGTGCTGAAAAAGTGGGAGGAGGGTACGGTAGTCAAGTTGCATGGCTAGTCATGGACCAA TTGACAAGTCAGCCACAGAGCACGACTTGAGGGCTACAATTTGATTTGGGAAACTTGGAATACG AGATAAGAGGAGAGCTGTTCAGTTTTCTCCTCCATATATGATTAGAGGTAGCCACCGGAGTCTG AGTAAGATTAGAGGGAGCACCAATAGTTGCACACCTGCTTTCCTCATCTGCTCCCTGTTTTTTC TGACCTCACTTCTAATGTACCAACTCAAAGGCTTGTCTTTGACTAAGTCATGATTAGTCCTCAA GTTGGTTTAGGTCTTGAGGGATGACTAGACTGACTGTGCGACTAACAACCATGGCTGAAGAATA GCACATCGGCATGGAGAAATGTGAAATATAGTGATGGATCTCATTGCTGTAGGATAAGGAATGG CACTGGTGGTGGCGCAAAGTTGTGCAGTTAGCAGAATTAGTTTCAGCTGTGTTAATTACGTTGC AGCAGAAGTTCACGGATGTGGTATATTTCAATGAAACAAGAGAGGATTATGGTACTAGATGATG TGTGAGAAGAAAGTGTTTTTTAGATTTAAGCTTCTAGTTATGCTGTAGGTTGAAATATCTCATT TTCCTTTGCAAAGAAAGATGATCTGGATCATATTCATCTTTTGTTATGTGTGCACGCATTGCAA TATATCATAGCAGCTGGTATGATTTGAACAAAATTTGCTAACAAACCCTGAACTGTAAAAAGTC TTATGTTGTCTGACTTCCTTGAAATGTCTTCAGGGAAGTTTTTGTTCAGTCGATTATTATTTGG TGGCTAAAGCAGATTTCAAAAACCTAATGTGCCTATTGGATTGAATAGATCTCCACTGTTTTCT TTGATGATGTTTCAGATTGCTGTGCTGGCAGATGATATCTTGAAAAATGTTGAGTATGATGCTC TAAGGGTTGTTTTTAACAAGTTCCACTCGGTCATATCATTCAAGCCCACAATGACAACCATACT TTCCCCAGAGGTAAATATCGGTGCTGAGGACATGAATTTGTGCTCCTATAAAGTAATATGAATG ATGTGACGTTAATACTAGTGGTTTGAATTGTTTTATAGGTTATGGAGAAAGAATCGGAATCTGG TAAGGTTGGTGACCTGGATTCATATGAAATTGAAGGAGGTGAAACTAAATCAGAAATTCTTCAG AATCTTACCGAGTTCCAGTTTTCTTGTGTAAGTTTGTCTTCATTAATCATATATACCTCTCAAT AGATGAATTAGCTACAACTATTACAGCCACAAAATCAAGTCGCATCCATAAGGGTAAACGTTCC CTTTGTAGAGAGCGCAATCATTCTTTTTTCAAGGTATCCTAGTGGTATCTTATGTTTTTGCTTT GTGGCAGGTTATGTATAATGCTGCTCTAGAGAATGCATGCAGTGAGCTTGGAGCACGTATGTCT GCCATGGACAGCTCCAGCAGAAACGCTGGTGAAATGCTTGATCGACTCACCCTCACATACAACA G

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.121523001

Conservation Information
Conserved circRNAs	NA
PMCS	0.121523001

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							8696356-8693080(+)
8693071-8693080(+)
8693091-8696350(-)
						
						Potential amino acid sequence
						
							MHAVSLEHVCLPWTAPAETLVKCLIDSPSHTTVRTRMKSVRNIQKITKAMKMVAASKLRAVQIR
TENSRGLWQPFTALLGDVPSVDVKKNVIVAITSDKGLCGGINSTSVKVSKALHKLTSGPEKESK
YVILGEKGKVQLIRDSKDNIEMTVSELQKNPINYTQIAVLADDILKNVEYDALRVVFNKFHSVI
SFKPTMTTILSPEVMEKESESGKVGDLDSYEIEGGETKSEILQNLTEFQFSCVMYNAALENACS
ELGARMSAMDSSSRNAGEMLDRLTLTYNSENPHEEC*(+)
MKSVRNIQKITKAMKMVAASKLRAVQIRTENSRGLWQPFTALLGDVPSVDVKKNVIVAITSDKG
LCGGINSTSVKVSKALHKLTSGPEKESKYVILGEKGKVQLIRDSKDNIEMTVSELQKNPINYTQ
IAVLADDILKNVEYDALRVVFNKFHSVISFKPTMTTILSPEVMEKESESGKVGDLDSYEIEGGE
TKSEILQNLTEFQFSCVMYNAALENACSELGARMSAMDSSSRNAGEMLDRLTLTYNSENPHEEC
*(+)
MFLTLFMRVLTVVCEGESIKHFTSVSAGAVHGRHTCSKLTACIL*(-)
						
						Sponge-miRNAs
						
							osa-miR529a 						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	8696356-8693080(+) 8693071-8693080(+) 8693091-8696350(-)
Potential amino acid sequence	MHAVSLEHVCLPWTAPAETLVKCLIDSPSHTTVRTRMKSVRNIQKITKAMKMVAASKLRAVQIR TENSRGLWQPFTALLGDVPSVDVKKNVIVAITSDKGLCGGINSTSVKVSKALHKLTSGPEKESK YVILGEKGKVQLIRDSKDNIEMTVSELQKNPINYTQIAVLADDILKNVEYDALRVVFNKFHSVI SFKPTMTTILSPEVMEKESESGKVGDLDSYEIEGGETKSEILQNLTEFQFSCVMYNAALENACS ELGARMSAMDSSSRNAGEMLDRLTLTYNSENPHEEC(+) MKSVRNIQKITKAMKMVAASKLRAVQIRTENSRGLWQPFTALLGDVPSVDVKKNVIVAITSDKG LCGGINSTSVKVSKALHKLTSGPEKESKYVILGEKGKVQLIRDSKDNIEMTVSELQKNPINYTQ IAVLADDILKNVEYDALRVVFNKFHSVISFKPTMTTILSPEVMEKESESGKVGDLDSYEIEGGE TKSEILQNLTEFQFSCVMYNAALENACSELGARMSAMDSSSRNAGEMLDRLTLTYNSENPHEEC (+) MFLTLFMRVLTVVCEGESIKHFTSVSAGAVHGRHTCSKLTACIL*(-)
Sponge-miRNAs	osa-miR529a
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015;Chu et al., 2017

circRNA

Detail information of Os10g0320400_circ_g.1

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