Plant Circular RNA Database

Detail information of Os04g0648700_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os04g0648700_circ_g.2
					
						ID in PlantcircBase
						osa_circ_025651
					
						Alias
						Os_ciR9626
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr4: 33010088-33012249  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Os04g0648700						
					
						Parent gene annotation
						
							DNA repair nuclease, XPF-type/Helicase domain containing protein
. (Os04t0648700-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						2
					
						Tissues
						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
						Os04t0648700-01:5

General Information
CircRNA Name	Os04g0648700_circ_g.2
ID in PlantcircBase	osa_circ_025651
Alias	Os_ciR9626
Organism	Oryza sativa
Position	chr4: 33010088-33012249 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	find_circ
Parent gene	Os04g0648700
Parent gene annotation	DNA repair nuclease, XPF-type/Helicase domain containing protein . (Os04t0648700-01)
Parent gene strand	+
Alternative splicing	NA
Support reads	2
Tissues	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	Os04t0648700-01:5

			
						 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  
						
							TGCTATTCCCGGAGTCAGTCCAGGACAAGCTATTGCAATTGAGAAGAAGTACCCGTCCATGAGA
TCACTACTGAATGTGTATATGGATGACAGTAAATCTgaccaagcttcaacatcacaagtgccat
atattctctttgtgcttcaagctgaggaattctgcgatcttgtaagtggtggtacattactgga
tcatgttc

									
								

					

						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
						
							GACCAAGCTTCAACATCACAAGTGCCATATATTCTCTTTGTGCTTCAAGCTGAGGAATTCTGCG
ATCTTGTAAGTGGTGGTACATTACTGGATCATGTTCAGAAAGTTCGAAGACAGTATCCAGAATT
CACAATTTGCTACGTTACTAATAAACTGATGAGCTTCATAAAAAGACGGTTAGTTCCTGGAAGT
ATGGATTATCTTATATTTACTGTTCTTTTGGTCTGAACTCTGCTTTAAATTCTGATTTTGTGTT
CAAATCATGTTGGTTTTTCTTAGTGCATGTAAGTTCAGTGGCAGTCAACATTAGTTTTGTGTGC
TAATGTTTCTTAATTGTCATTAGTCTATTTTTGCTTGAACTATACGATCACATAGTTTTGGACT
GCTGGTACTTTATGGCTAATGAAAAGCAGCATTTCTGAGAAAAAGCATTGTACTCGCTCCGTTT
CACATTATAAGACGTCTTGGCATCTCAATCCATCATCTAGATTCACTAATGTATATATGAACTT
GGACACATATGAAGCACATACATGGATCCATGCATGAATCTATTCAAAATCCAAAATGTCTTAT
AATGTGAAACAGAGGAAGTAATATGTAATATGTTGCACTGTTCACACCATGACAAACACATACG
CACAAGACTGGAGAAATATGCATGACTCTCAAGGTTTGGAAGGAAAACATAGTTATGTGAGGTA
TTGTTTGTGTTTGCCTATCGTCCTGCTAAAATCACCTTCTTTTCATGCCAGTGAGCAGAATCAG
TACAACAAGACCACATCAAATTCTAATAGTTGGAAGCGTCCACCAGTGGAAGAGGTCTGTTTGC
AACGCTATCAATTTCTGTTCTGAACTACTACTGTATCCTGAAATGTCTCATATTCTTTTAGGCC
TTATGCAAATTAGCGACACACTATGCTAGAGTGCGCTCAAGGCACTGCACAGATGAAGCTGAAG
TGACAGAGCATATTGTTGGCTTGACATATAGTCTTGCGAATTGCAAGTTCAGGCAAGTTACGTT
TGACAATATAAATACTTAACACATTCTTCTGGCCAATATTGTGCCTTTCACGCACATTTGGTGC
AGAAATATTTTTGTTGTTTCACTCAATGAACAACCAAGTCCATGTTTTGATACTGTCCCCTGCT
GACTGTTCTGCAGGAAACCATTGACATGGTTATCTGTGCATGCTAATGGTTCAAATATTTCTAA
AGGTTGCGTTGATAAAGATCGGATTAAGAAAAGTGCCTGGTAAGTTGTGCTTAGAACTGTATAC
TGAACCAAATTTCCATTTGTTGCTGTATGCTTTGCCTTTTTGTGTCCACTAATTGAAATAATGT
TCCTTTCTCTATATACAGTACATTAGATGATTAGAAGAAGCACATTTCACAGTTTTCATCTTGT
GTACAAGGTTTACTTGCAGTTTGCAAAGTATGGTGTTGATTCAAGTTCTGAACCAGCATTTCTG
AATATTTCTATTTGGTTGTTGCTAAACTGATGATCCTCTATGAAATCTAGCCTAGCCTGTCTAG
GTACCTCAGATACATTTAGTATTTGATCTAATTCTTTCCTTTGGTACTTTGGTACAATCAAATC
GAATTGTTCAAATCAGAACTGACAGTGTTTGTAATCCAACCTTGTCTATAAATATTTTGTGGCA
CTTCTTTTCTTTGTAGATGACATCATCTATTCAGCCAACATCGGATATCAGCCAAGCTTGGTTG
ATGTTGGTTTGCAAGCTATATTTACATTAACGGTTTAGCATGGTGGTTAAGTGATGCTTCTGTG
GACCCGTGGATGGAGACCATGCATGGACTTTTGGATTTTCGGATTGTGTGGCCTTTAATTTTTT
CTGATTTTATAGTAGAGATGTTCTGACTATGTGCTACCTATTTTAATTGTGACAACTTGATAAT
TTTGGTCCCCCATACTTTTGACAGTTCTAGCTCCCAACTATGCATTCGAATATAGTGTTCTTGG
TTTCTTGACAGTTAATGATTTGTAGAGTGTCACTATGCTAATTCTTCAAATCATCTGTAACAGG
CTGAAGTCTTTAGTTGCTATTCCCGGAGTCAGTCCAGGACAAGCTATTGCAATTGAGAAGAAGT
ACCCGTCCATGAGATCACTACTGAATGTGTATATGGATGACAGTAAATCT
						
					

			
		

Sequences
Splice junction sequence	TGCTATTCCCGGAGTCAGTCCAGGACAAGCTATTGCAATTGAGAAGAAGTACCCGTCCATGAGA TCACTACTGAATGTGTATATGGATGACAGTAAATCTgaccaagcttcaacatcacaagtgccat atattctctttgtgcttcaagctgaggaattctgcgatcttgtaagtggtggtacattactgga tcatgttc
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	GACCAAGCTTCAACATCACAAGTGCCATATATTCTCTTTGTGCTTCAAGCTGAGGAATTCTGCG ATCTTGTAAGTGGTGGTACATTACTGGATCATGTTCAGAAAGTTCGAAGACAGTATCCAGAATT CACAATTTGCTACGTTACTAATAAACTGATGAGCTTCATAAAAAGACGGTTAGTTCCTGGAAGT ATGGATTATCTTATATTTACTGTTCTTTTGGTCTGAACTCTGCTTTAAATTCTGATTTTGTGTT CAAATCATGTTGGTTTTTCTTAGTGCATGTAAGTTCAGTGGCAGTCAACATTAGTTTTGTGTGC TAATGTTTCTTAATTGTCATTAGTCTATTTTTGCTTGAACTATACGATCACATAGTTTTGGACT GCTGGTACTTTATGGCTAATGAAAAGCAGCATTTCTGAGAAAAAGCATTGTACTCGCTCCGTTT CACATTATAAGACGTCTTGGCATCTCAATCCATCATCTAGATTCACTAATGTATATATGAACTT GGACACATATGAAGCACATACATGGATCCATGCATGAATCTATTCAAAATCCAAAATGTCTTAT AATGTGAAACAGAGGAAGTAATATGTAATATGTTGCACTGTTCACACCATGACAAACACATACG CACAAGACTGGAGAAATATGCATGACTCTCAAGGTTTGGAAGGAAAACATAGTTATGTGAGGTA TTGTTTGTGTTTGCCTATCGTCCTGCTAAAATCACCTTCTTTTCATGCCAGTGAGCAGAATCAG TACAACAAGACCACATCAAATTCTAATAGTTGGAAGCGTCCACCAGTGGAAGAGGTCTGTTTGC AACGCTATCAATTTCTGTTCTGAACTACTACTGTATCCTGAAATGTCTCATATTCTTTTAGGCC TTATGCAAATTAGCGACACACTATGCTAGAGTGCGCTCAAGGCACTGCACAGATGAAGCTGAAG TGACAGAGCATATTGTTGGCTTGACATATAGTCTTGCGAATTGCAAGTTCAGGCAAGTTACGTT TGACAATATAAATACTTAACACATTCTTCTGGCCAATATTGTGCCTTTCACGCACATTTGGTGC AGAAATATTTTTGTTGTTTCACTCAATGAACAACCAAGTCCATGTTTTGATACTGTCCCCTGCT GACTGTTCTGCAGGAAACCATTGACATGGTTATCTGTGCATGCTAATGGTTCAAATATTTCTAA AGGTTGCGTTGATAAAGATCGGATTAAGAAAAGTGCCTGGTAAGTTGTGCTTAGAACTGTATAC TGAACCAAATTTCCATTTGTTGCTGTATGCTTTGCCTTTTTGTGTCCACTAATTGAAATAATGT TCCTTTCTCTATATACAGTACATTAGATGATTAGAAGAAGCACATTTCACAGTTTTCATCTTGT GTACAAGGTTTACTTGCAGTTTGCAAAGTATGGTGTTGATTCAAGTTCTGAACCAGCATTTCTG AATATTTCTATTTGGTTGTTGCTAAACTGATGATCCTCTATGAAATCTAGCCTAGCCTGTCTAG GTACCTCAGATACATTTAGTATTTGATCTAATTCTTTCCTTTGGTACTTTGGTACAATCAAATC GAATTGTTCAAATCAGAACTGACAGTGTTTGTAATCCAACCTTGTCTATAAATATTTTGTGGCA CTTCTTTTCTTTGTAGATGACATCATCTATTCAGCCAACATCGGATATCAGCCAAGCTTGGTTG ATGTTGGTTTGCAAGCTATATTTACATTAACGGTTTAGCATGGTGGTTAAGTGATGCTTCTGTG GACCCGTGGATGGAGACCATGCATGGACTTTTGGATTTTCGGATTGTGTGGCCTTTAATTTTTT CTGATTTTATAGTAGAGATGTTCTGACTATGTGCTACCTATTTTAATTGTGACAACTTGATAAT TTTGGTCCCCCATACTTTTGACAGTTCTAGCTCCCAACTATGCATTCGAATATAGTGTTCTTGG TTTCTTGACAGTTAATGATTTGTAGAGTGTCACTATGCTAATTCTTCAAATCATCTGTAACAGG CTGAAGTCTTTAGTTGCTATTCCCGGAGTCAGTCCAGGACAAGCTATTGCAATTGAGAAGAAGT ACCCGTCCATGAGATCACTACTGAATGTGTATATGGATGACAGTAAATCT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.103650933

Conservation Information
Conserved circRNAs	NA
PMCS	0.103650933

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							33010245-33012246(+)
33012225-33010157(+)
33010174-33012181(-)
						
						Potential amino acid sequence
						
							MSFIKRREQNQYNKTTSNSNSWKRPPVEEALCKLATHYARVRSRHCTDEAEVTEHIVGLTYSLA
NCKFRKPLTWLSVHANGSNISKGCVDKDRIKKSAWLKSLVAIPGVSPGQAIAIEKKYPSMRSLL
NVYMDDSKSDQASTSQVPYILFVLQAEEFCDLVSGGTLLDHVQKVRRQYPEFTICYVTNKLMSF
IKRREQNQYNKTTSNSNSWKRPPVEEALCKLATHYARVRSRHCTDEAEVTEHIVGLTYSLANCK
FRKPLTWLSVHANGSNISKGCVDKDRIKKSAWLKSLVAIPGVSPGQAIAIEKKYPSMRSLLNVY
MDDSKSDQASTSQVPYILFVLQAEEFCDLVSGGTLLDHVQKVRRQYPEFTICYVTNKLMSFIKR
REQNQYNKTTSNSNSWKRPPVEEALCKLATHYARVRSRHCTDEAEVTEHIVGLTYSLANCKFRK
PLTWLSVHANGSNISKGCVDKDRIKKSAWLKSLVAIPGVSPGQAIAIEKKYPSMRSLLNVYMDD
SKSDQASTSQVPYILFVLQAEEFCDLVSGGTLLDHVQKVRRQYPEFTICYVTNKLMSFIKRREQ
NQYNKTTSNSNSWKRPPVEEALCKLATHYARVRSRHCTDEAEVTEHIVGLTYSLANCKFRKPLT
WLSVHANGSNISKGCVDKDRIKKSAWLKSLVAIPGVSPGQAIAIEKKYPSMRSLLNVYMDDSKS
(+)
MCIWMTVNLTKLQHHKCHIFSLCFKLRNSAIL*(+)
MYHHLQDRRIPQLEAQREYMALVMLKLGQIYCHPYTHSVVISWTGTSSQLQ*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	33010245-33012246(+) 33012225-33010157(+) 33010174-33012181(-)
Potential amino acid sequence	MSFIKRREQNQYNKTTSNSNSWKRPPVEEALCKLATHYARVRSRHCTDEAEVTEHIVGLTYSLA NCKFRKPLTWLSVHANGSNISKGCVDKDRIKKSAWLKSLVAIPGVSPGQAIAIEKKYPSMRSLL NVYMDDSKSDQASTSQVPYILFVLQAEEFCDLVSGGTLLDHVQKVRRQYPEFTICYVTNKLMSF IKRREQNQYNKTTSNSNSWKRPPVEEALCKLATHYARVRSRHCTDEAEVTEHIVGLTYSLANCK FRKPLTWLSVHANGSNISKGCVDKDRIKKSAWLKSLVAIPGVSPGQAIAIEKKYPSMRSLLNVY MDDSKSDQASTSQVPYILFVLQAEEFCDLVSGGTLLDHVQKVRRQYPEFTICYVTNKLMSFIKR REQNQYNKTTSNSNSWKRPPVEEALCKLATHYARVRSRHCTDEAEVTEHIVGLTYSLANCKFRK PLTWLSVHANGSNISKGCVDKDRIKKSAWLKSLVAIPGVSPGQAIAIEKKYPSMRSLLNVYMDD SKSDQASTSQVPYILFVLQAEEFCDLVSGGTLLDHVQKVRRQYPEFTICYVTNKLMSFIKRREQ NQYNKTTSNSNSWKRPPVEEALCKLATHYARVRSRHCTDEAEVTEHIVGLTYSLANCKFRKPLT WLSVHANGSNISKGCVDKDRIKKSAWLKSLVAIPGVSPGQAIAIEKKYPSMRSLLNVYMDDSKS (+) MCIWMTVNLTKLQHHKCHIFSLCFKLRNSAIL(+) MYHHLQDRRIPQLEAQREYMALVMLKLGQIYCHPYTHSVVISWTGTSSQLQ(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015

circRNA

Detail information of Os04g0648700_circ_g.2

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