Plant Circular RNA Database

Detail information of Os10g0359500_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os10g0359500_circ_g.2
					
						ID in PlantcircBase
						osa_circ_006579
					
						Alias
						Os_ciR4553
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr10: 11036863-11038045  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os10g0359500						
					
						Parent gene annotation
						
							No apical meristem (NAM) protein domain containing protein. (Os1
0t0359500-01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os10g0359500_circ_g.1 Os10g0359500_circ_g.3 Os10g0359500_circ_g.4 Os10g0359500_circ_g.5 Os10g0359500_circ_g.6 						
					
						Support reads
						4/2
					
						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  
						
							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
						Os10t0359500-01:3

General Information
CircRNA Name	Os10g0359500_circ_g.2
ID in PlantcircBase	osa_circ_006579
Alias	Os_ciR4553
Organism	Oryza sativa
Position	chr10: 11036863-11038045 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os10g0359500
Parent gene annotation	No apical meristem (NAM) protein domain containing protein. (Os1 0t0359500-01)
Parent gene strand	-
Alternative splicing	Os10g0359500_circ_g.1 Os10g0359500_circ_g.3 Os10g0359500_circ_g.4 Os10g0359500_circ_g.5 Os10g0359500_circ_g.6
Support reads	4/2
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	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	Os10t0359500-01:3

			
						 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  
						
							CCAACAACTTTCCAGTATCCGGTTTTTGACTTTATAATAGCATTTTCTCCATTCTTAGGGGATT
GTGGATCATCTGAAAAATTCATGTACCATATGTCCTcttgttcaggtggactgataaccacgca
atctgatttactagctgcagctacgctgaacttgctgtctgtatgttcttcatcagctgcgtta
tggtcatt

						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
						
							CTTGTTCAGGTGGACTGATAACCACGCAATCTGATTTACTAGCTGCAGCTACGCTGAACTTGCT
GTCTGTATGTTCTTCATCAGCTGCGTTATGGTCATTCCTAATCTCCCTCAGAAATGCATCAGAA
TCGAAGTACTCTTCAGAAATCATAGTGCGTTGACTTGAGTATTCCGAAGTTGATGCGGACGAAT
CTGAGTTTAAGAAGTCATTCAATTCTATGTAGCCCTCCCTAGAAGGGGCATGATTAACAGATTG
GTCATCAGCAGCACTAGTTTTTTGCCCGTCCAGTCCTTTGCTGGAAGAGACATCTTGCTCGTTT
ACAGATACAGCCTGGCATATGTAGATTGGATATTCATTAGTATTATCACACATCTAAATATTCA
CAGTTTGTAATGCAGAAGAAAGCAATAAGTAGTAAATGATGATCGGATAGGAGCATGCTCTCAC
AAACAACAGATTTTGTATGGTTATGAAGGAGAAAACCTTAAATACTTCAAAATCAAAATAAAAA
AGTGAATTACAATGACAGGATTGCTGGAGTATTTCTTAATTTTACATGACAGACAATCATGGAT
CAAGGTATACTTTACACTAAAATGAGAAAAAATATGTGCAAAACTAAAAGATCCAGGGTATTGC
TAAGGATGCCTTACATAATAAAGAAAACAATACAAACCTGGTTGCTCCATGCAGCATTTTGCTC
TTCTAGTTCAGCAAGATATTGAAGGTAAAATTCCTTGCGTTCATTAGGAACATTTGCATTCAGA
CATATCTGCTTATCTCCAGCATTTAATATGTCGTCTCCCTGAAAGAATATTGTACACAAATTCT
TGTAGTCCTGTCAAAAATACAAAAGATATCAATCAACAACCCTGGAAAAAAAGCTTATATGCTA
TAGAAAAAAAAATGATATCAATCAACCACCATGGGTTACCTGTGGTAGATTAGCTTCGTCATTC
TGTTCAATCAGATATTCATCCATCACCCACCCAGTTCTCTTACCAGATGGTGCTTCGCCTTCAT
AATGGTCCAGAGAAACTTTCATACCCACAATAACAGTACTTGTCGGTATTCTAACAGTGCCAAC
AACTTTCCAGTATCCGGTTTTTGACTTTATAATAGCATTTTCTCCATTCTTAGGGGATTGTGGA
TCATCTGAAAAATTCATGTACCATATGTCCT

Sequences
Splice junction sequence	CCAACAACTTTCCAGTATCCGGTTTTTGACTTTATAATAGCATTTTCTCCATTCTTAGGGGATT GTGGATCATCTGAAAAATTCATGTACCATATGTCCTcttgttcaggtggactgataaccacgca atctgatttactagctgcagctacgctgaacttgctgtctgtatgttcttcatcagctgcgtta tggtcatt
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	CTTGTTCAGGTGGACTGATAACCACGCAATCTGATTTACTAGCTGCAGCTACGCTGAACTTGCT GTCTGTATGTTCTTCATCAGCTGCGTTATGGTCATTCCTAATCTCCCTCAGAAATGCATCAGAA TCGAAGTACTCTTCAGAAATCATAGTGCGTTGACTTGAGTATTCCGAAGTTGATGCGGACGAAT CTGAGTTTAAGAAGTCATTCAATTCTATGTAGCCCTCCCTAGAAGGGGCATGATTAACAGATTG GTCATCAGCAGCACTAGTTTTTTGCCCGTCCAGTCCTTTGCTGGAAGAGACATCTTGCTCGTTT ACAGATACAGCCTGGCATATGTAGATTGGATATTCATTAGTATTATCACACATCTAAATATTCA CAGTTTGTAATGCAGAAGAAAGCAATAAGTAGTAAATGATGATCGGATAGGAGCATGCTCTCAC AAACAACAGATTTTGTATGGTTATGAAGGAGAAAACCTTAAATACTTCAAAATCAAAATAAAAA AGTGAATTACAATGACAGGATTGCTGGAGTATTTCTTAATTTTACATGACAGACAATCATGGAT CAAGGTATACTTTACACTAAAATGAGAAAAAATATGTGCAAAACTAAAAGATCCAGGGTATTGC TAAGGATGCCTTACATAATAAAGAAAACAATACAAACCTGGTTGCTCCATGCAGCATTTTGCTC TTCTAGTTCAGCAAGATATTGAAGGTAAAATTCCTTGCGTTCATTAGGAACATTTGCATTCAGA CATATCTGCTTATCTCCAGCATTTAATATGTCGTCTCCCTGAAAGAATATTGTACACAAATTCT TGTAGTCCTGTCAAAAATACAAAAGATATCAATCAACAACCCTGGAAAAAAAGCTTATATGCTA TAGAAAAAAAAATGATATCAATCAACCACCATGGGTTACCTGTGGTAGATTAGCTTCGTCATTC TGTTCAATCAGATATTCATCCATCACCCACCCAGTTCTCTTACCAGATGGTGCTTCGCCTTCAT AATGGTCCAGAGAAACTTTCATACCCACAATAACAGTACTTGTCGGTATTCTAACAGTGCCAAC AACTTTCCAGTATCCGGTTTTTGACTTTATAATAGCATTTTCTCCATTCTTAGGGGATTGTGGA TCATCTGAAAAATTCATGTACCATATGTCCT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.109062813

Conservation Information
Conserved circRNAs	NA
PMCS	0.109062813

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							11038031-11037020(+)
11038033-11036865(-)
						
						Potential amino acid sequence
						
							MYHMSSCSGGLITTQSDLLAAATLNLLSVCSSSAALWSFLISLRNASESKYSSEIIVR*(+)
MNFSDDPQSPKNGENAIIKSKTGYWKVVGTVRIPTSTVIVGMKVSLDHYEGEAPSGKRTGWVMD
EYLIEQNDEANLPQDYKNLCTIFFQGDDILNAGDKQICLNANVPNERKEFYLQYLAELEEQNAA
WSNQAVSVNEQDVSSSKGLDGQKTSAADDQSVNHAPSREGYIELNDFLNSDSSASTSEYSSQRT
MISEEYFDSDAFLREIRNDHNAADEEHTDSKFSVAAASKSDCVVISPPEQEDIWYMNFSDDPQS
PKNGENAIIKSKTGYWKVVGTVRIPTSTVIVGMKVSLDHYEGEAPSGKRTGWVMDEYLIEQNDE
ANLPQDYKNLCTIFFQGDDILNAGDKQICLNANVPNERKEFYLQYLAELEEQNAAWSNQAVSVN
EQDVSSSKGLDGQKTSAADDQSVNHAPSREGYIELNDFLNSDSSASTSEYSSQRTMISEEYFDS
DAFLREIRNDHNAADEEHTDSKFSVAAASKSDCVVISPPEQEDIWYMNFSDDPQSPKNGENAII
KSKTGYWKVVGTVRIPTSTVIVGMKVSLDHYEGEAPSGKRTGWVMDEYLIEQNDEANLPQDYKN
LCTIFFQGDDILNAGDKQICLNANVPNERKEFYLQYLAELEEQNAAWSNQAVSVNEQDVSSSKG
LDGQKTSAADDQSVNHAPSREGYIELNDFLNSDSSASTSEYSSQRTMISEEYFDSDAFLREIRN
DHNAADEEHTDSKFSVAAASKSDCVVISPPEQEDIWYMNFSDDPQSPKNGENAIIKSKTGYWKV
VGTVRIPTSTVIVGMKVSLDHYEGEAPSGKRTGWVMDEYLIEQNDEANLPQDYKNLCTIFFQGD
DILNAGDKQICLNANVPNERKEFYLQYLAELEEQNAAWSNQAVSVNEQDVSSSKGLDGQKTSAA
DDQSVNHAPSREGYIELNDFLNSDSSASTSEYSSQRTMISEEYFDSDAFLREIRNDHNAADEEH
TDSKFSVAAASKSDCVVISPPEQ(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	11038031-11037020(+) 11038033-11036865(-)
Potential amino acid sequence	MYHMSSCSGGLITTQSDLLAAATLNLLSVCSSSAALWSFLISLRNASESKYSSEIIVR*(+) MNFSDDPQSPKNGENAIIKSKTGYWKVVGTVRIPTSTVIVGMKVSLDHYEGEAPSGKRTGWVMD EYLIEQNDEANLPQDYKNLCTIFFQGDDILNAGDKQICLNANVPNERKEFYLQYLAELEEQNAA WSNQAVSVNEQDVSSSKGLDGQKTSAADDQSVNHAPSREGYIELNDFLNSDSSASTSEYSSQRT MISEEYFDSDAFLREIRNDHNAADEEHTDSKFSVAAASKSDCVVISPPEQEDIWYMNFSDDPQS PKNGENAIIKSKTGYWKVVGTVRIPTSTVIVGMKVSLDHYEGEAPSGKRTGWVMDEYLIEQNDE ANLPQDYKNLCTIFFQGDDILNAGDKQICLNANVPNERKEFYLQYLAELEEQNAAWSNQAVSVN EQDVSSSKGLDGQKTSAADDQSVNHAPSREGYIELNDFLNSDSSASTSEYSSQRTMISEEYFDS DAFLREIRNDHNAADEEHTDSKFSVAAASKSDCVVISPPEQEDIWYMNFSDDPQSPKNGENAII KSKTGYWKVVGTVRIPTSTVIVGMKVSLDHYEGEAPSGKRTGWVMDEYLIEQNDEANLPQDYKN LCTIFFQGDDILNAGDKQICLNANVPNERKEFYLQYLAELEEQNAAWSNQAVSVNEQDVSSSKG LDGQKTSAADDQSVNHAPSREGYIELNDFLNSDSSASTSEYSSQRTMISEEYFDSDAFLREIRN DHNAADEEHTDSKFSVAAASKSDCVVISPPEQEDIWYMNFSDDPQSPKNGENAIIKSKTGYWKV VGTVRIPTSTVIVGMKVSLDHYEGEAPSGKRTGWVMDEYLIEQNDEANLPQDYKNLCTIFFQGD DILNAGDKQICLNANVPNERKEFYLQYLAELEEQNAAWSNQAVSVNEQDVSSSKGLDGQKTSAA DDQSVNHAPSREGYIELNDFLNSDSSASTSEYSSQRTMISEEYFDSDAFLREIRNDHNAADEEH TDSKFSVAAASKSDCVVISPPEQ(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

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

circRNA

Detail information of Os10g0359500_circ_g.2

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