Plant Circular RNA Database

Detail information of Os10g0140200_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os10g0140200_circ_g.2
					
						ID in PlantcircBase
						osa_circ_006171
					
						Alias
						Os_ciR837
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr10: 2480104-2481446  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os10g0140200						
					
						Parent gene annotation
						
							Glycoside hydrolase, family 38 domain containing protein. (Os10t
0140200-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os10g0140200_circ_g.3 						
					
						Support reads
						22/4
					
						Tissues
						root/shoot, 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
						Os10t0140200-01:6

General Information
CircRNA Name	Os10g0140200_circ_g.2
ID in PlantcircBase	osa_circ_006171
Alias	Os_ciR837
Organism	Oryza sativa
Position	chr10: 2480104-2481446 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os10g0140200
Parent gene annotation	Glycoside hydrolase, family 38 domain containing protein. (Os10t 0140200-01)
Parent gene strand	+
Alternative splicing	Os10g0140200_circ_g.3
Support reads	22/4
Tissues	root/shoot, 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	Os10t0140200-01:6

			
						 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  
						
							CACAAACCACATAATGTGGACTATGGGGGACGATTTTAATTACCAGTATGCTGAGTCTTGGTTC
CGGAACATGGACAGGCTTATCAATTATGTGAACAAGgctttcttccaaagatggtgggcagaga
aaagcccaaaaatccaggccatagtccacaagctagttgattctggtcagctagagttcatgta
tgggattc

									
								

					

						Assembled circRNA sequence  
						
							Yes
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
						
							Transcript length: 118
Transcript exons: 2480104-2480153,2481379-2481446
GCTTTCTTCCAAAGATGGTGGGCAGAGAAAAGCCCAAAAATCCAGGCCATATTTTAATTACCAG
TATGCTGAGTCTTGGTTCCGGAACATGGACAGGCTTATCAATTATGTGAACAAG
Transcript length: 153
Transcript exons: 2480104-2480163,2481354-2481446
GCTTTCTTCCAAAGATGGTGGGCAGAGAAAAGCCCAAAAATCCAGGCCATAGTCCACAAGCACA
TAATGTGGACTATGGGGGACGATTTTAATTACCAGTATGCTGAGTCTTGGTTCCGGAACATGGA
CAGGCTTATCAATTATGTGAACAAG
Transcript length: 654
Transcript exons: 2480104-2480192,2480269-2480443,2480755-2480874,2480995-
2481078,2481162-2481233,2481333-2481446
GCTTTCTTCCAAAGATGGTGGGCAGAGAAAAGCCCAAAAATCCAGGCCATAGTCCACAAGCTAG
TTGATTCTGGTCAGCTAGAGTTCATAAATGGTGGGTGGTGTATGCATGATGAAGCCGCCGTCCA
TTATATTGACATGATTGATCAGACCACACTTGGTCATCGGGTAATCAAGAAACAGTTTAACAAG
ATCCCAAGAGCTGGCTGGCAAATTGATCCTTTTGGTCATTCTGCAGTTCAAGGTTATTTGCTTG
GGGCAGAGCTTGGTTTCGATTCTATGCATTTTGCGAGAATCGATTACCAAGATAGAGCAAAGCG
TAAAGGAGACAAAGGCCTAGAGGTTATATGGCGCGGCTCAAGAACATTTGGTTCATCTTCTCAG
ATCTTCACAAATGCATTTCCTGTCCATTATAGCCCTCCAGATGGCTTCGGCTTCGAAATTTTCG
ATGATTTTGTACCTGTACAGGATGACATGTTGCTGTTTGACTACAATCTTAAAGAACGTGTGAA
TGATTTTGTTGCTGCAGCCTTAAAACAGGCAAATGTTACGCGCACAAACCACATAATGTGGACT
ATGGGGGACGATTTTAATTACCAGTATGCTGAGTCTTGGTTCCGGAACATGGACAGGCTTATCA
ATTATGTGAACAAG
						
					

						Genomic sequence
						
							GCTTTCTTCCAAAGATGGTGGGCAGAGAAAAGCCCAAAAATCCAGGCCATAGTCCACAAGCTAG
TTGATTCTGGTCAGCTAGAGTTCATGTATGGGATTCAATCTCATTGCTATATTGGATTTTGTCT
TTAGAAGTTTGAGAAAATTTGGAAATTTTAAATTCAGAAATGGTGGGTGGTGTATGCATGATGA
AGCCGCCGTCCATTATATTGACATGATTGATCAGACCACACTTGGTCATCGGGTAATCAAGAAA
CAGTTTAACAAGATCCCAAGAGCTGGCTGGCAAATTGATCCTTTTGGTCATTCTGCAGTTCAAG
GTTATTTGCTTGGGGCAGAGGTAATATTAACATCACATTTGAGCACCATGCATGTCGAGTCCTT
ATAGAACTATTGGACCGCTATAATCTCATGCTCCTACATACTATTCCATTTTCTGAAAGCCTTG
CAAATCTATTTATGTGTATTTGTGCAAATGTACCTAAAGTCCTTTTGTTGTTTTAAGTTATCTT
CATATCAAAGTTTAGATTTTGCCAGATGTATCATTTTGCTGGATGTTCAAGAAGTTCACTGTGT
CATAGAATTCTTTTTTCCTCATAATATCGGTGCTAGAGTGTGGAGATTTTACATTTGTTTACAT
TGCAATTCTAGCTTGGTTTCGATTCTATGCATTTTGCGAGAATCGATTACCAAGATAGAGCAAA
GCGTAAAGGAGACAAAGGCCTAGAGGTTATATGGCGCGGCTCAAGAACATTTGGTTCATCTTCT
CAGGTTACTATTGTTCTTTTTTCTTGCAAATAGTTTCATATCTATTCATTAGTAACTTATCATG
TGTTGTTAAGTTGTTGATTCTATTATCACTGTTCATTTAAACATCTGATTAAACTGCAGATCTT
CACAAATGCATTTCCTGTCCATTATAGCCCTCCAGATGGCTTCGGCTTCGAAATTTTCGATGAT
TTTGTACCTGTACAGGTATATGCATGGTTGCAGATCAGCAGTTTCAGTTATCCCCAGATACACA
AATTTCAATTGATTGTTCAACCATTTCGATATAGGATGACATGTTGCTGTTTGACTACAATCTT
AAAGAACGTGTGAATGATTTTGTTGCTGCAGCCTTAAAACAGGTAAATTTCCATTTCTTGGTTT
ATTTCTTCCCAGTTAAAAATCAGCATTGAACAGAAACCCAGATTTGGATTCTGCCTTCTTTTTT
TTTTATGTGACAGGCAAATGTTACGCGCACAAACCACATAATGTGGACTATGGGGGACGATTTT
AATTACCAGTATGCTGAGTCTTGGTTCCGGAACATGGACAGGCTTATCAATTATGTGAACAAG
						
					

			
		

Sequences
Splice junction sequence	CACAAACCACATAATGTGGACTATGGGGGACGATTTTAATTACCAGTATGCTGAGTCTTGGTTC CGGAACATGGACAGGCTTATCAATTATGTGAACAAGgctttcttccaaagatggtgggcagaga aaagcccaaaaatccaggccatagtccacaagctagttgattctggtcagctagagttcatgta tgggattc
Assembled circRNA sequence	Yes 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	Transcript length: 118 Transcript exons: 2480104-2480153,2481379-2481446 GCTTTCTTCCAAAGATGGTGGGCAGAGAAAAGCCCAAAAATCCAGGCCATATTTTAATTACCAG TATGCTGAGTCTTGGTTCCGGAACATGGACAGGCTTATCAATTATGTGAACAAG Transcript length: 153 Transcript exons: 2480104-2480163,2481354-2481446 GCTTTCTTCCAAAGATGGTGGGCAGAGAAAAGCCCAAAAATCCAGGCCATAGTCCACAAGCACA TAATGTGGACTATGGGGGACGATTTTAATTACCAGTATGCTGAGTCTTGGTTCCGGAACATGGA CAGGCTTATCAATTATGTGAACAAG Transcript length: 654 Transcript exons: 2480104-2480192,2480269-2480443,2480755-2480874,2480995- 2481078,2481162-2481233,2481333-2481446 GCTTTCTTCCAAAGATGGTGGGCAGAGAAAAGCCCAAAAATCCAGGCCATAGTCCACAAGCTAG TTGATTCTGGTCAGCTAGAGTTCATAAATGGTGGGTGGTGTATGCATGATGAAGCCGCCGTCCA TTATATTGACATGATTGATCAGACCACACTTGGTCATCGGGTAATCAAGAAACAGTTTAACAAG ATCCCAAGAGCTGGCTGGCAAATTGATCCTTTTGGTCATTCTGCAGTTCAAGGTTATTTGCTTG GGGCAGAGCTTGGTTTCGATTCTATGCATTTTGCGAGAATCGATTACCAAGATAGAGCAAAGCG TAAAGGAGACAAAGGCCTAGAGGTTATATGGCGCGGCTCAAGAACATTTGGTTCATCTTCTCAG ATCTTCACAAATGCATTTCCTGTCCATTATAGCCCTCCAGATGGCTTCGGCTTCGAAATTTTCG ATGATTTTGTACCTGTACAGGATGACATGTTGCTGTTTGACTACAATCTTAAAGAACGTGTGAA TGATTTTGTTGCTGCAGCCTTAAAACAGGCAAATGTTACGCGCACAAACCACATAATGTGGACT ATGGGGGACGATTTTAATTACCAGTATGCTGAGTCTTGGTTCCGGAACATGGACAGGCTTATCA ATTATGTGAACAAG
Genomic sequence	GCTTTCTTCCAAAGATGGTGGGCAGAGAAAAGCCCAAAAATCCAGGCCATAGTCCACAAGCTAG TTGATTCTGGTCAGCTAGAGTTCATGTATGGGATTCAATCTCATTGCTATATTGGATTTTGTCT TTAGAAGTTTGAGAAAATTTGGAAATTTTAAATTCAGAAATGGTGGGTGGTGTATGCATGATGA AGCCGCCGTCCATTATATTGACATGATTGATCAGACCACACTTGGTCATCGGGTAATCAAGAAA CAGTTTAACAAGATCCCAAGAGCTGGCTGGCAAATTGATCCTTTTGGTCATTCTGCAGTTCAAG GTTATTTGCTTGGGGCAGAGGTAATATTAACATCACATTTGAGCACCATGCATGTCGAGTCCTT ATAGAACTATTGGACCGCTATAATCTCATGCTCCTACATACTATTCCATTTTCTGAAAGCCTTG CAAATCTATTTATGTGTATTTGTGCAAATGTACCTAAAGTCCTTTTGTTGTTTTAAGTTATCTT CATATCAAAGTTTAGATTTTGCCAGATGTATCATTTTGCTGGATGTTCAAGAAGTTCACTGTGT CATAGAATTCTTTTTTCCTCATAATATCGGTGCTAGAGTGTGGAGATTTTACATTTGTTTACAT TGCAATTCTAGCTTGGTTTCGATTCTATGCATTTTGCGAGAATCGATTACCAAGATAGAGCAAA GCGTAAAGGAGACAAAGGCCTAGAGGTTATATGGCGCGGCTCAAGAACATTTGGTTCATCTTCT CAGGTTACTATTGTTCTTTTTTCTTGCAAATAGTTTCATATCTATTCATTAGTAACTTATCATG TGTTGTTAAGTTGTTGATTCTATTATCACTGTTCATTTAAACATCTGATTAAACTGCAGATCTT CACAAATGCATTTCCTGTCCATTATAGCCCTCCAGATGGCTTCGGCTTCGAAATTTTCGATGAT TTTGTACCTGTACAGGTATATGCATGGTTGCAGATCAGCAGTTTCAGTTATCCCCAGATACACA AATTTCAATTGATTGTTCAACCATTTCGATATAGGATGACATGTTGCTGTTTGACTACAATCTT AAAGAACGTGTGAATGATTTTGTTGCTGCAGCCTTAAAACAGGTAAATTTCCATTTCTTGGTTT ATTTCTTCCCAGTTAAAAATCAGCATTGAACAGAAACCCAGATTTGGATTCTGCCTTCTTTTTT TTTTATGTGACAGGCAAATGTTACGCGCACAAACCACATAATGTGGACTATGGGGGACGATTTT AATTACCAGTATGCTGAGTCTTGGTTCCGGAACATGGACAGGCTTATCAATTATGTGAACAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_001066 osi_circ_008758 						
					
						PMCS
						0.415654468

Conservation Information
Conserved circRNAs	osi_circ_001066 osi_circ_008758
PMCS	0.415654468

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							2480286-2481443(+)
2480155-2481436(-)
						
						Potential amino acid sequence
						
							MHDEAAVHYIDMIDQTTLGHRVIKKQFNKIPRAGWQIDPFGHSAVQGYLLGAELGFDSMHFARI
DYQDRAKRKGDKGLEVIWRGSRTFGSSSQIFTNAFPVHYSPPDGFGFEIFDDFVPVQDDMLLFD
YNLKERVNDFVAAALKQANVTRTNHIMWTMGDDFNYQYAESWFRNMDRLINYVNKAFFQRWWAE
KSPKIQAIVHKLVDSGQLEFINGGWCMHDEAAVHYIDMIDQTTLGHRVIKKQFNKIPRAGWQID
PFGHSAVQGYLLGAELGFDSMHFARIDYQDRAKRKGDKGLEVIWRGSRTFGSSSQIFTNAFPVH
YSPPDGFGFEIFDDFVPVQDDMLLFDYNLKERVNDFVAAALKQANVTRTNHIMWTMGDDFNYQY
AESWFRNMDRLINYVNKAFFQRWWAEKSPKIQAIVHKLVDSGQLEFINGGWCMHDEAAVHYIDM
IDQTTLGHRVIKKQFNKIPRAGWQIDPFGHSAVQGYLLGAELGFDSMHFARIDYQDRAKRKGDK
GLEVIWRGSRTFGSSSQIFTNAFPVHYSPPDGFGFEIFDDFVPVQDDMLLFDYNLKERVNDFVA
AALKQANVTRTNHIMWTMGDDFNYQYAESWFRNMDRLINYVNKAFFQRWWAEKSPKIQAIVHKL
VDSGQLEFINGGWCMHDEAAVHYIDMIDQTTLGHRVIKKQFNKIPRAGWQIDPFGHSAVQGYLL
GAELGFDSMHFARIDYQDRAKRKGDKGLEVIWRGSRTFGSSSQIFTNAFPVHYSPPDGFGFEIF
DDFVPVQDDMLLFDYNLKERVNDFVAAALKQANVTRTNHIMWTMGDDFNYQYAESWFRNMDRLI
NYVNK(+)
MAWIFGLFSAHHLWKKALFT*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	2480286-2481443(+) 2480155-2481436(-)
Potential amino acid sequence	MHDEAAVHYIDMIDQTTLGHRVIKKQFNKIPRAGWQIDPFGHSAVQGYLLGAELGFDSMHFARI DYQDRAKRKGDKGLEVIWRGSRTFGSSSQIFTNAFPVHYSPPDGFGFEIFDDFVPVQDDMLLFD YNLKERVNDFVAAALKQANVTRTNHIMWTMGDDFNYQYAESWFRNMDRLINYVNKAFFQRWWAE KSPKIQAIVHKLVDSGQLEFINGGWCMHDEAAVHYIDMIDQTTLGHRVIKKQFNKIPRAGWQID PFGHSAVQGYLLGAELGFDSMHFARIDYQDRAKRKGDKGLEVIWRGSRTFGSSSQIFTNAFPVH YSPPDGFGFEIFDDFVPVQDDMLLFDYNLKERVNDFVAAALKQANVTRTNHIMWTMGDDFNYQY AESWFRNMDRLINYVNKAFFQRWWAEKSPKIQAIVHKLVDSGQLEFINGGWCMHDEAAVHYIDM IDQTTLGHRVIKKQFNKIPRAGWQIDPFGHSAVQGYLLGAELGFDSMHFARIDYQDRAKRKGDK GLEVIWRGSRTFGSSSQIFTNAFPVHYSPPDGFGFEIFDDFVPVQDDMLLFDYNLKERVNDFVA AALKQANVTRTNHIMWTMGDDFNYQYAESWFRNMDRLINYVNKAFFQRWWAEKSPKIQAIVHKL VDSGQLEFINGGWCMHDEAAVHYIDMIDQTTLGHRVIKKQFNKIPRAGWQIDPFGHSAVQGYLL GAELGFDSMHFARIDYQDRAKRKGDKGLEVIWRGSRTFGSSSQIFTNAFPVHYSPPDGFGFEIF DDFVPVQDDMLLFDYNLKERVNDFVAAALKQANVTRTNHIMWTMGDDFNYQYAESWFRNMDRLI NYVNK(+) MAWIFGLFSAHHLWKKALFT*(-)
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 Os10g0140200_circ_g.2

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