Plant Circular RNA Database

Detail information of Os07g0246200_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os07g0246200_circ_g.3
					
						ID in PlantcircBase
						osa_circ_033284
					
						Alias
						Os_ciR5589
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr7: 8138195-8140712  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Os07g0246200						
					
						Parent gene annotation
						
							Similar to Calreticulin (Fragment). (Os07t0246200-01);Similar to
 Calreticulin (Fragment). (Os07t0246200-02);Similar to calreticu
lin2. (Os07t0246200-03)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os07g0246200_circ_g.1 Os07g0246200_circ_g.2 Os07g0246200_circ_g.4 Os07g0246200_circ_g.5 Os07g0246200_circ_g.6 Os07g0246200_circ_g.7 Os07g0246200_circ_g.8 Os07g0246200_circ_g.9 Os07g0246200_circ_g.10 Os07g0246200_circ_g.11 Os07g0246200_circ_g.12 Os07g0246200_circ_g.13 Os07g0246200_circ_g.14 Os07g0246200_circ_g.15 Os07g0246200_circ_g.16 Os07g0246200_circ_g.17 Os07g0246200_circ_g.18 Os07g0246200_circ_g.19 Os07g0246200_circ_g.20 Os07g0246200_circ_g.21 Os07g0246200_circ_g.22 Os07g0246200_circ_g.23 						
					
						Support reads
						3
					
						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
						Os07t0246200-02:12
Os07t0246200-01:12
Os07t0246200-03:12

General Information
CircRNA Name	Os07g0246200_circ_g.3
ID in PlantcircBase	osa_circ_033284
Alias	Os_ciR5589
Organism	Oryza sativa
Position	chr7: 8138195-8140712 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	find_circ
Parent gene	Os07g0246200
Parent gene annotation	Similar to Calreticulin (Fragment). (Os07t0246200-01);Similar to Calreticulin (Fragment). (Os07t0246200-02);Similar to calreticu lin2. (Os07t0246200-03)
Parent gene strand	+
Alternative splicing	Os07g0246200_circ_g.1 Os07g0246200_circ_g.2 Os07g0246200_circ_g.4 Os07g0246200_circ_g.5 Os07g0246200_circ_g.6 Os07g0246200_circ_g.7 Os07g0246200_circ_g.8 Os07g0246200_circ_g.9 Os07g0246200_circ_g.10 Os07g0246200_circ_g.11 Os07g0246200_circ_g.12 Os07g0246200_circ_g.13 Os07g0246200_circ_g.14 Os07g0246200_circ_g.15 Os07g0246200_circ_g.16 Os07g0246200_circ_g.17 Os07g0246200_circ_g.18 Os07g0246200_circ_g.19 Os07g0246200_circ_g.20 Os07g0246200_circ_g.21 Os07g0246200_circ_g.22 Os07g0246200_circ_g.23
Support reads	3
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	Os07t0246200-02:12 Os07t0246200-01:12 Os07t0246200-03:12

			
						 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  
						
							TTATATTTCACAGGACGAGGATGCTGAGGATGAGGACAAGGCCGATGAGAAGGCTGACTCTGAT
GCAGAGGATGGCAAGGATTCTGATGATGAGAAGCATatggatgggaaagtcggtgggtcaagtc
agaatggaagaaggatgagaacatggctggtgaatggaaccacacatctgggaagtggaatgga
gatcctga

									
								

					

						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
						
							ATGGATGGGAAAGTCGGTGGGTCAAGTCAGAATGGAAGAAGGATGAGAACATGGCTGGTGAATG
GAACCACACATCTGGGAAGTGGAATGGAGATCCTGAGGACAAAGGTAAATTGGAAGATCAATAC
ACCTCATTCAGACACTAACAGATGATTTTTACTGAATTATTTTTCTTGTTGCAGGTATCCAAAC
CTCTGAGGACTACAGGTTCTACGCTATTTCAGCGGAGTACCCAGAATTCAGCAACAAGGATAAA
ACCCTGGTGCTGCAGTTCTCTGTAAAGCATGAGCAAAAGCTTGACTGTGGTGGTGGATATGTCA
AGTTGCTTGGTGGTGATGTTGACCAGAAGAAATTTGGTGGGGACACACCGTACAGGTAATGATT
TTCTTCTATTGTAGCTCTGATTCTCACTTTTCTCAAGATTAGTACTAGTTATCTAACTTGGTAC
TTTTGAATGCAGCATTATGTTTGGACCAGACATCTGTGGGTACAGCACCAAGAAGGTCCATACT
ATCTTTACTAAGAATGACAAGAACCATTTGATCAAGAAGGATGTCCCCTGCGAGACTGATCAGC
TGTCCCATGTGTACACTTTGATCATCCATCCTGATGCTACATACACCATACTTATTGACAATGT
TGAGAAGCAATCTGGCAGCATCTACGAGCACTGGGATATTCTGCCTCCGAAGCAAATCAAGGAC
CCAGAAGCTAAGAAGGTATTTTGCATATTCCTAGCTTTCTTGGAATGCCTTGCTTTTGTGTCTC
TTGAATGTTAAGATATTACCTTATGATTACAGCCAGAGGACTGGGATGACAAGGAGTACATTCC
TGACCCTGAGGACAAGAAGCCTGAGGTACTTTTCCTTTGTTCTGACTTCCGATATATCTTGTAA
AAATGACTAACTTCGTATCTTGCATGAATGAGAAACGGGAACCTTAGCTGACCTGAATTAGAAA
AGTTCACACTATATTGTACTCTTGTAATACTATATGTCTTAATAGATTTAAACGTGATGCTAGA
AACTAGGAAGAAGCTACATGTTTTTGTTGTGTAATGACTTGTGGTATGCTGTTTCCAGGGATAC
GATGATATTCCCAAGGAAATCCCTGACCCTGATGCTAAGAAGGTACTTAATTGTTATACCATTT
TATGGTTTATGTTATATATGATGAGCGTCATTCTAGGTTTTAAAATTTCTTTGATGTGATTTCT
GTAGCCTGAGGACTGGGATGATGAGGAAGATGGTGAGTGGACTGCACCAACCATTCCTAACCCT
GAGTACAAGGGACCATGGAAGCAAAAGGTGTGAATATCTGTTTACTGATGCAGATGCACTTGAA
ACACTTGCATATTTCTGGTTTCTGACATAAACATGTTTCTTTTTCCAGAAAATCAAGAACCCTA
ACTACCAAGGCAAATGGAAGGCACCGATGATCGACAACCCAGGTATAATTGCCTTTAATTGAAC
AACTTGGTATTACACATTTTTCAGATGTTGAACTCTGCATTCTGAACTGTTTCCTTTGTGGTTC
ACAGACTTCAAGGATGATCCATACATCTATGCTTTTGACAGCCTGAAGTACATTGGCATTGAGT
TGTGGCAGGTTAGTTAAGCAAAGTACAGTACGCCTTTAGTTCTGATTTATTTTGCTGGGTCAGG
AAGACAGACATAAATAGTTATGAACTTATCCCTTCTCTCTTCTATCAACAGGTCAAATCAGGTA
CTCTGTTTGACAACTTCCTTATTACTGACGACCCTGAGTTGGCCAAGACATTCGCAGAGGAGAC
ATGGGGCAAGCACAAGGATGTATGTCGTTCTTCACCTAGCTTTTACCGTGTAATAGTTTCGTTA
TCGACCCAACATTCTCTAACATTAGTGAATCTTGTAGGCTGAGAAGGCTGCTTTTGACGAGGCA
GAGAAAAAGAAGGAAGAGGAGGTAAATTCCTTCACCTTACAATGTTCTAATATGAGGATGATGG
ATGTACAACTGTCCTTGTCATTGCATTTCAGTCTGTGCTCCATTTCACTGTCTTTGCTATACGT
TTTGATTTTTGTTGGCATGAACACCAGTTCCTTGATGATCAGTGGGCCATTGCTTCCACTTAAT
TATACTATGGTGTGATCAAAACCTTTTAACTCACTGGCATGGTTCTGTTATTTGTAGTTTTACG
TATTATCTTCTGATTGTTACACCAGCATAGCTTTAAGCAACTGAAATATTCTCCTTTGCTGAAC
TGCCATCACTCGTGGTTATTGTGGATGTAATTTGCTTACCATTGATTATCAATGTCCTTGTTAA
CAGGAAGCTGCCAAGGCCGGTGAGGACGATGATGATTTGGATGTAAGATTTGCATCCGTTCTTC
CTCCATGTTCTATATTTTCCTTTTGGGCTTGATCTAAACCTCAACAACATTTATATTTCACAGG
ACGAGGATGCTGAGGATGAGGACAAGGCCGATGAGAAGGCTGACTCTGATGCAGAGGATGGCAA
GGATTCTGATGATGAGAAGCAT
						
					

			
		

Sequences
Splice junction sequence	TTATATTTCACAGGACGAGGATGCTGAGGATGAGGACAAGGCCGATGAGAAGGCTGACTCTGAT GCAGAGGATGGCAAGGATTCTGATGATGAGAAGCATatggatgggaaagtcggtgggtcaagtc agaatggaagaaggatgagaacatggctggtgaatggaaccacacatctgggaagtggaatgga gatcctga
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	ATGGATGGGAAAGTCGGTGGGTCAAGTCAGAATGGAAGAAGGATGAGAACATGGCTGGTGAATG GAACCACACATCTGGGAAGTGGAATGGAGATCCTGAGGACAAAGGTAAATTGGAAGATCAATAC ACCTCATTCAGACACTAACAGATGATTTTTACTGAATTATTTTTCTTGTTGCAGGTATCCAAAC CTCTGAGGACTACAGGTTCTACGCTATTTCAGCGGAGTACCCAGAATTCAGCAACAAGGATAAA ACCCTGGTGCTGCAGTTCTCTGTAAAGCATGAGCAAAAGCTTGACTGTGGTGGTGGATATGTCA AGTTGCTTGGTGGTGATGTTGACCAGAAGAAATTTGGTGGGGACACACCGTACAGGTAATGATT TTCTTCTATTGTAGCTCTGATTCTCACTTTTCTCAAGATTAGTACTAGTTATCTAACTTGGTAC TTTTGAATGCAGCATTATGTTTGGACCAGACATCTGTGGGTACAGCACCAAGAAGGTCCATACT ATCTTTACTAAGAATGACAAGAACCATTTGATCAAGAAGGATGTCCCCTGCGAGACTGATCAGC TGTCCCATGTGTACACTTTGATCATCCATCCTGATGCTACATACACCATACTTATTGACAATGT TGAGAAGCAATCTGGCAGCATCTACGAGCACTGGGATATTCTGCCTCCGAAGCAAATCAAGGAC CCAGAAGCTAAGAAGGTATTTTGCATATTCCTAGCTTTCTTGGAATGCCTTGCTTTTGTGTCTC TTGAATGTTAAGATATTACCTTATGATTACAGCCAGAGGACTGGGATGACAAGGAGTACATTCC TGACCCTGAGGACAAGAAGCCTGAGGTACTTTTCCTTTGTTCTGACTTCCGATATATCTTGTAA AAATGACTAACTTCGTATCTTGCATGAATGAGAAACGGGAACCTTAGCTGACCTGAATTAGAAA AGTTCACACTATATTGTACTCTTGTAATACTATATGTCTTAATAGATTTAAACGTGATGCTAGA AACTAGGAAGAAGCTACATGTTTTTGTTGTGTAATGACTTGTGGTATGCTGTTTCCAGGGATAC GATGATATTCCCAAGGAAATCCCTGACCCTGATGCTAAGAAGGTACTTAATTGTTATACCATTT TATGGTTTATGTTATATATGATGAGCGTCATTCTAGGTTTTAAAATTTCTTTGATGTGATTTCT GTAGCCTGAGGACTGGGATGATGAGGAAGATGGTGAGTGGACTGCACCAACCATTCCTAACCCT GAGTACAAGGGACCATGGAAGCAAAAGGTGTGAATATCTGTTTACTGATGCAGATGCACTTGAA ACACTTGCATATTTCTGGTTTCTGACATAAACATGTTTCTTTTTCCAGAAAATCAAGAACCCTA ACTACCAAGGCAAATGGAAGGCACCGATGATCGACAACCCAGGTATAATTGCCTTTAATTGAAC AACTTGGTATTACACATTTTTCAGATGTTGAACTCTGCATTCTGAACTGTTTCCTTTGTGGTTC ACAGACTTCAAGGATGATCCATACATCTATGCTTTTGACAGCCTGAAGTACATTGGCATTGAGT TGTGGCAGGTTAGTTAAGCAAAGTACAGTACGCCTTTAGTTCTGATTTATTTTGCTGGGTCAGG AAGACAGACATAAATAGTTATGAACTTATCCCTTCTCTCTTCTATCAACAGGTCAAATCAGGTA CTCTGTTTGACAACTTCCTTATTACTGACGACCCTGAGTTGGCCAAGACATTCGCAGAGGAGAC ATGGGGCAAGCACAAGGATGTATGTCGTTCTTCACCTAGCTTTTACCGTGTAATAGTTTCGTTA TCGACCCAACATTCTCTAACATTAGTGAATCTTGTAGGCTGAGAAGGCTGCTTTTGACGAGGCA GAGAAAAAGAAGGAAGAGGAGGTAAATTCCTTCACCTTACAATGTTCTAATATGAGGATGATGG ATGTACAACTGTCCTTGTCATTGCATTTCAGTCTGTGCTCCATTTCACTGTCTTTGCTATACGT TTTGATTTTTGTTGGCATGAACACCAGTTCCTTGATGATCAGTGGGCCATTGCTTCCACTTAAT TATACTATGGTGTGATCAAAACCTTTTAACTCACTGGCATGGTTCTGTTATTTGTAGTTTTACG TATTATCTTCTGATTGTTACACCAGCATAGCTTTAAGCAACTGAAATATTCTCCTTTGCTGAAC TGCCATCACTCGTGGTTATTGTGGATGTAATTTGCTTACCATTGATTATCAATGTCCTTGTTAA CAGGAAGCTGCCAAGGCCGGTGAGGACGATGATGATTTGGATGTAAGATTTGCATCCGTTCTTC CTCCATGTTCTATATTTTCCTTTTGGGCTTGATCTAAACCTCAACAACATTTATATTTCACAGG ACGAGGATGCTGAGGATGAGGACAAGGCCGATGAGAAGGCTGACTCTGATGCAGAGGATGGCAA GGATTCTGATGATGAGAAGCAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.228447035

Conservation Information
Conserved circRNAs	NA
PMCS	0.228447035

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							8140005-8138237(+)
8138246-8138472(+)
8138248-8139946(-)
						
						Potential amino acid sequence
						
							MLRRLLLTRQRKRRKRRKLPRPVRTMMIWMTRMLRMRTRPMRRLTLMQRMARILMMRSIWMGKS
VGQVRMEEG*(+)
MAGEWNHTSGKWNGDPEDKGIQTSEDYRFYAISAEYPEFSNKDKTLVLQFSVKHEQKLDCGGGY
VKLLGGDVDQKKFGGDTPYSIMFGPDICGYSTKKVHTIFTKNDKNHLIKKDVPCETDQLSHVYT
LIIHPDATYTILIDNVEKQSGSIYEHWDILPPKQIKDPEAKKPEDWDDKEYIPDPEDKKPEGYD
DIPKEIPDPDAKKPEDWDDEEDGEWTAPTIPNPEYKGPWKQKKIKNPNYQGKWKAPMIDNPDFK
DDPYIYAFDSLKYIGIELWQVKSGTLFDNFLITDDPELAKTFAEETWGKHKDAEKAAFDEAEKK
KEEEEAAKAGEDDDDLDDEDAEDEDKADEKADSDAEDGKDSDDEKHMDGKVGGSSQNGRRMRTW
LVNGTTHLGSGMEILRTKVSKPLRTTGSTLFQRSTQNSATRIKPWCCSSL*(+)
MFSSFFHSDLTHRLSHPYASHHQNPCHPLHQSQPSHRPCPHPQHPRHPNHHRPHRPWQLPPLPS
FSLPRQKQPSQHPCACPMSPLRMSWPTQGRQ*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	8140005-8138237(+) 8138246-8138472(+) 8138248-8139946(-)
Potential amino acid sequence	MLRRLLLTRQRKRRKRRKLPRPVRTMMIWMTRMLRMRTRPMRRLTLMQRMARILMMRSIWMGKS VGQVRMEEG(+) MAGEWNHTSGKWNGDPEDKGIQTSEDYRFYAISAEYPEFSNKDKTLVLQFSVKHEQKLDCGGGY VKLLGGDVDQKKFGGDTPYSIMFGPDICGYSTKKVHTIFTKNDKNHLIKKDVPCETDQLSHVYT LIIHPDATYTILIDNVEKQSGSIYEHWDILPPKQIKDPEAKKPEDWDDKEYIPDPEDKKPEGYD DIPKEIPDPDAKKPEDWDDEEDGEWTAPTIPNPEYKGPWKQKKIKNPNYQGKWKAPMIDNPDFK DDPYIYAFDSLKYIGIELWQVKSGTLFDNFLITDDPELAKTFAEETWGKHKDAEKAAFDEAEKK KEEEEAAKAGEDDDDLDDEDAEDEDKADEKADSDAEDGKDSDDEKHMDGKVGGSSQNGRRMRTW LVNGTTHLGSGMEILRTKVSKPLRTTGSTLFQRSTQNSATRIKPWCCSSL(+) MFSSFFHSDLTHRLSHPYASHHQNPCHPLHQSQPSHRPCPHPQHPRHPNHHRPHRPWQLPPLPS FSLPRQKQPSQHPCACPMSPLRMSWPTQGRQ*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015

circRNA

Detail information of Os07g0246200_circ_g.3

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