Plant Circular RNA Database

Detail information of Os07g0637300_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os07g0637300_circ_g.2
					
						ID in PlantcircBase
						osa_circ_034949
					
						Alias
						Os07circ18271/Os_ciR3452
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr7: 26482154-26484126  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, SMALT, Segemehl, find_circ
					
						Parent gene
						
							Os07g0637300						
					
						Parent gene annotation
						
							Similar to Pyruvate dehydrogenase kinase. (Os07t0637300-01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os07g0637300_circ_g.3 Os07g0637300_circ_g.4 						
					
						Support reads
						5/3/1
					
						Tissues
						leaf and panicle/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
						Os07t0637300-01:4

General Information
CircRNA Name	Os07g0637300_circ_g.2
ID in PlantcircBase	osa_circ_034949
Alias	Os07circ18271/Os_ciR3452
Organism	Oryza sativa
Position	chr7: 26482154-26484126 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, SMALT, Segemehl, find_circ
Parent gene	Os07g0637300
Parent gene annotation	Similar to Pyruvate dehydrogenase kinase. (Os07t0637300-01)
Parent gene strand	-
Alternative splicing	Os07g0637300_circ_g.3 Os07g0637300_circ_g.4
Support reads	5/3/1
Tissues	leaf and panicle/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	Os07t0637300-01:4

			
						 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  
						
							TCATCTTGATCATCTGCGTAAAAGCGAGCTCGTCGTTCCTATTCCTCACTTCTGGAAAGTATCT
GATGTCGCGGAAAGAGTCCAAGTACCAATCCCGCACcgtatccttccatagagatgatttgcag
gtcaccaccaaaatatcgagcatacaggcgactgattggaagaccatagccatatccagccata
gttactcc

									
								

					

						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: 796
Transcript exons: 26482154-26482358,26483092-26483239,26483476-26483656,26
483865-26484126
CGTATCCTTCCATAGAGATGATTTGCAGGTCACCACCAAAATATCGAGCATACAGGCGACTGAT
TGGAAGACCATAGCCATATCCAGCCATAGTTACTCCTTCACTAGGGCAATCCATATCAGGTGGA
TTCTTTGCAGTGCTATATAGATATGTGAAAATTCTTGGAAGGCCGCTCCTTGGTATTCCACCAC
CTTCATCACTAACCTTGATAGTTACATCCTCTGCCCCATCAGCAACGATAATTCTAACTGGAGG
AACATCTTTATCGGAATTCATATATCGTTCCTGTACTGCACGCAAGGAGTTCTTCACCAATTCA
AATAGCATGAGATGTAGATGTGATGAAACATATGGAAATGTAAAAGTTGGGTCTCCATAGATGT
CAATCTCAGGAGCTGATCCATATTCCCTCAAACAAATAGAACGGGCATCTTCACTGGCAGCTTG
AGCCACCTGTATAGGGGACAATTCTGTATTAATGAGGCCTATGACGCCAGGCTCTGGGTCAGGA
TCATGCAAAGCCACATGCTGCCCTATAAGCATGCGGATCCCAATCCTTGACATGTAGAATCTGT
CAAGAAACTCGTGGATCTCGTCAAATGCAGTGGGGATCTTCCTTGTGCGATACTGCTCGTTCTT
GAGCTGTTGAACTCCCAGTGCCATCGTTGGAACCACATTATTGTGGCGTACTTTGATCATCTTG
ATCATCTGCGTAAAAGCGAGCTCGTCGTTCCTATTCCTCACTTCTGGAAAGTATCTGATGTCGC
GGAAAGAGTCCAAGTACCAATCCCGCAC
						
					

						Genomic sequence
						
							CGTATCCTTCCATAGAGATGATTTGCAGGTCACCACCAAAATATCGAGCATACAGGCGACTGAT
TGGAAGACCATAGCCATATCCAGCCATAGTTACTCCTTCACTAGGGCAATCCATATCAGGTGGA
TTCTTTGCAGTGCTATATAGATATGTGAAAATTCTTGGAAGGCCGCTCCTTGGTATTCCACCAC
CTTCATCACTAACCTGCATCAGCATAACATTGATGTTGAAACACTTAAATATCACTTCCCTTAT
TTTATGAAAATTCCAACTCCCTGATGTTTCCTCACATGGAATATTTCTCAAATTTATTCCAACT
AGAATACATTATATATTGCACCAAAAGATTGAGCAAGATGTAACTTCTAACGACGGAAAGCATC
TGCCACGTAAAAAGACAGTAGCACCTATCATTCTTGACACTGACCAGTTTCTAGTAATGATAGT
AATGATATGCCCCACAAATAACATGGCAGCTGTACAGAAAGGCAGCTTGACTTGCATCACATAA
TAACAGTATATCAAATAATGTTCTTCAGCTAATTAAATTTTCTGTTCGTCAATATTACTAGAAA
CAAATATACCATTCAATTTGCATCCACTTCAAAGATAAAATATAGCATCTTTCTTACTGCCAGA
TTGGTTTAAAGTTGAGACATGTCCTGTTCAGCAGCCAGCGCTAATTCTTACCTGATCCTTCTGC
CAGTCACCATCCAACTCAACTAATTCGATATAACTATATAAGTCAGAGTTATTCATATTTGCTA
TTTATGCCAAGAATGTTAAAATCGTATGATAAATTGGTGCCAGTGGAACTTCCATTACAGTCAT
TTGAGTCTAAAAACTTGTAAAGGTACAACTCATTTAATGACTGCTCATACCCAGGGAGCTAGGA
TGCTATTAATAACAGATGTTTGGTGATGTAATAGATGAATACCTTGATAGTTACATCCTCTGCC
CCATCAGCAACGATAATTCTAACTGGAGGAACATCTTTATCGGAATTCATATATCGTTCCTGTA
CTGCACGCAAGGAGTTCTTCACCAATTCAAATAGCATGAGATGTAGATGTGATGAAACATATCT
GCAGTTTACAAGGTTAAAGGAGTTAACACATTAGTATGCCAAAATTTAGTAGGCAGTAAAAGAT
GACCCCGAACAAATTATGTCTTATAAGAATAGTCAAATTGAACAGAAAACAAGCTCTATGACAA
TAGAAGAATAATCACACAAGATGCACTAACAGAAAACATGAACTGGACTAAAACATGGTTAATG
AAGTTTGAAAAAAACTAATGTTAATTTATATCGGAGACTTACGGAAATGTAAAAGTTGGGTCTC
CATAGATGTCAATCTCAGGAGCTGATCCATATTCCCTCAAACAAATAGAACGGGCATCTTCACT
GGCAGCTTGAGCCACCTGTATAGGGGACAATTCTGTATTAATGAGGCCTATGACGCCAGGCTCT
GGGTCAGGATCATGCAAAGCCACATGCTGCCCTGAAATTAAGCAAGTTGACAATAACTCAGAAC
AAGAATCTATCAATAACTAGAACTGCACTCTTATATGATTAGACAAATTAGCACATAAACCACC
ATACGATTTAGGACAGGTTAGGAGATAAAGTTGACTAAAAAAAGATGTCACTGCCGGTACACCA
AATCCAGAGTTGCATTATGACAAAAAAGCAGTGTCAAGCTTGCTAACCTATAAGCATGCGGATC
CCAATCCTTGACATGTAGAATCTGTCAAGAAACTCGTGGATCTCGTCAAATGCAGTGGGGATCT
TCCTTGTGCGATACTGCTCGTTCTTGAGCTGTTGAACTCCCAGTGCCATCGTTGGAACCACATT
ATTGTGGCGTACTTTGATCATCTTGATCATCTGCGTAAAAGCGAGCTCGTCGTTCCTATTCCTC
ACTTCTGGAAAGTATCTGATGTCGCGGAAAGAGTCCAAGTACCAATCCCGCAC
						
					

			
		

Sequences
Splice junction sequence	TCATCTTGATCATCTGCGTAAAAGCGAGCTCGTCGTTCCTATTCCTCACTTCTGGAAAGTATCT GATGTCGCGGAAAGAGTCCAAGTACCAATCCCGCACcgtatccttccatagagatgatttgcag gtcaccaccaaaatatcgagcatacaggcgactgattggaagaccatagccatatccagccata gttactcc
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: 796 Transcript exons: 26482154-26482358,26483092-26483239,26483476-26483656,26 483865-26484126 CGTATCCTTCCATAGAGATGATTTGCAGGTCACCACCAAAATATCGAGCATACAGGCGACTGAT TGGAAGACCATAGCCATATCCAGCCATAGTTACTCCTTCACTAGGGCAATCCATATCAGGTGGA TTCTTTGCAGTGCTATATAGATATGTGAAAATTCTTGGAAGGCCGCTCCTTGGTATTCCACCAC CTTCATCACTAACCTTGATAGTTACATCCTCTGCCCCATCAGCAACGATAATTCTAACTGGAGG AACATCTTTATCGGAATTCATATATCGTTCCTGTACTGCACGCAAGGAGTTCTTCACCAATTCA AATAGCATGAGATGTAGATGTGATGAAACATATGGAAATGTAAAAGTTGGGTCTCCATAGATGT CAATCTCAGGAGCTGATCCATATTCCCTCAAACAAATAGAACGGGCATCTTCACTGGCAGCTTG AGCCACCTGTATAGGGGACAATTCTGTATTAATGAGGCCTATGACGCCAGGCTCTGGGTCAGGA TCATGCAAAGCCACATGCTGCCCTATAAGCATGCGGATCCCAATCCTTGACATGTAGAATCTGT CAAGAAACTCGTGGATCTCGTCAAATGCAGTGGGGATCTTCCTTGTGCGATACTGCTCGTTCTT GAGCTGTTGAACTCCCAGTGCCATCGTTGGAACCACATTATTGTGGCGTACTTTGATCATCTTG ATCATCTGCGTAAAAGCGAGCTCGTCGTTCCTATTCCTCACTTCTGGAAAGTATCTGATGTCGC GGAAAGAGTCCAAGTACCAATCCCGCAC
Genomic sequence	CGTATCCTTCCATAGAGATGATTTGCAGGTCACCACCAAAATATCGAGCATACAGGCGACTGAT TGGAAGACCATAGCCATATCCAGCCATAGTTACTCCTTCACTAGGGCAATCCATATCAGGTGGA TTCTTTGCAGTGCTATATAGATATGTGAAAATTCTTGGAAGGCCGCTCCTTGGTATTCCACCAC CTTCATCACTAACCTGCATCAGCATAACATTGATGTTGAAACACTTAAATATCACTTCCCTTAT TTTATGAAAATTCCAACTCCCTGATGTTTCCTCACATGGAATATTTCTCAAATTTATTCCAACT AGAATACATTATATATTGCACCAAAAGATTGAGCAAGATGTAACTTCTAACGACGGAAAGCATC TGCCACGTAAAAAGACAGTAGCACCTATCATTCTTGACACTGACCAGTTTCTAGTAATGATAGT AATGATATGCCCCACAAATAACATGGCAGCTGTACAGAAAGGCAGCTTGACTTGCATCACATAA TAACAGTATATCAAATAATGTTCTTCAGCTAATTAAATTTTCTGTTCGTCAATATTACTAGAAA CAAATATACCATTCAATTTGCATCCACTTCAAAGATAAAATATAGCATCTTTCTTACTGCCAGA TTGGTTTAAAGTTGAGACATGTCCTGTTCAGCAGCCAGCGCTAATTCTTACCTGATCCTTCTGC CAGTCACCATCCAACTCAACTAATTCGATATAACTATATAAGTCAGAGTTATTCATATTTGCTA TTTATGCCAAGAATGTTAAAATCGTATGATAAATTGGTGCCAGTGGAACTTCCATTACAGTCAT TTGAGTCTAAAAACTTGTAAAGGTACAACTCATTTAATGACTGCTCATACCCAGGGAGCTAGGA TGCTATTAATAACAGATGTTTGGTGATGTAATAGATGAATACCTTGATAGTTACATCCTCTGCC CCATCAGCAACGATAATTCTAACTGGAGGAACATCTTTATCGGAATTCATATATCGTTCCTGTA CTGCACGCAAGGAGTTCTTCACCAATTCAAATAGCATGAGATGTAGATGTGATGAAACATATCT GCAGTTTACAAGGTTAAAGGAGTTAACACATTAGTATGCCAAAATTTAGTAGGCAGTAAAAGAT GACCCCGAACAAATTATGTCTTATAAGAATAGTCAAATTGAACAGAAAACAAGCTCTATGACAA TAGAAGAATAATCACACAAGATGCACTAACAGAAAACATGAACTGGACTAAAACATGGTTAATG AAGTTTGAAAAAAACTAATGTTAATTTATATCGGAGACTTACGGAAATGTAAAAGTTGGGTCTC CATAGATGTCAATCTCAGGAGCTGATCCATATTCCCTCAAACAAATAGAACGGGCATCTTCACT GGCAGCTTGAGCCACCTGTATAGGGGACAATTCTGTATTAATGAGGCCTATGACGCCAGGCTCT GGGTCAGGATCATGCAAAGCCACATGCTGCCCTGAAATTAAGCAAGTTGACAATAACTCAGAAC AAGAATCTATCAATAACTAGAACTGCACTCTTATATGATTAGACAAATTAGCACATAAACCACC ATACGATTTAGGACAGGTTAGGAGATAAAGTTGACTAAAAAAAGATGTCACTGCCGGTACACCA AATCCAGAGTTGCATTATGACAAAAAAGCAGTGTCAAGCTTGCTAACCTATAAGCATGCGGATC CCAATCCTTGACATGTAGAATCTGTCAAGAAACTCGTGGATCTCGTCAAATGCAGTGGGGATCT TCCTTGTGCGATACTGCTCGTTCTTGAGCTGTTGAACTCCCAGTGCCATCGTTGGAACCACATT ATTGTGGCGTACTTTGATCATCTTGATCATCTGCGTAAAAGCGAGCTCGTCGTTCCTATTCCTC ACTTCTGGAAAGTATCTGATGTCGCGGAAAGAGTCCAAGTACCAATCCCGCAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_007360* 						
					
						PMCS
						0.224458553

Conservation Information
Conserved circRNAs	osi_circ_007360*
PMCS	0.224458553

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							26484093-26482298(+)
26484041-26484067(-)
26482236-26484067(-)
						
						Potential amino acid sequence
						
							MSRKESKYQSRTVSFHRDDLQVTTKISSIQATDWKTIAISSHSYSFTRAIHIRWILCSAI*(+)
MIKMIKVRHNNVVPTMALGVQQLKNEQYRTRKIPTAFDEIHEFLDRFYMSRIGIRMLIGQHVAL
HDPDPEPGVIGLINTELSPIQVAQAASEDARSICLREYGSAPEIDIYGDPTFTFPYVSSHLHLM
LFELVKNSLRAVQERYMNSDKDVPPVRIIVADGAEDVTIKVSDEGGGIPRSGLPRIFTYLYSTA
KNPPDMDCPSEGVTMAGYGYGLPISRLYARYFGGDLQIISMEGYGAGLVLGLFPRHQILSRSEE
*(-)
MAMVFQSVACMLDILVVTCKSSLWKDTVRDWYLDSFRDIRYFPEVRNRNDELAFTQMIKMIKVR
HNNVVPTMALGVQQLKNEQYRTRKIPTAFDEIHEFLDRFYMSRIGIRMLIGQHVALHDPDPEPG
VIGLINTELSPIQVAQAASEDARSICLREYGSAPEIDIYGDPTFTFPYVSSHLHLMLFELVKNS
LRAVQERYMNSDKDVPPVRIIVADGAEDVTIKVSDEGGGIPRSGLPRIFTYLYSTAKNPPDMDC
PSEGVTMAGYGYGLPISRLYARYFGGDLQIISMEGYGAGLVLGLFPRHQILSRSEE*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	26484093-26482298(+) 26484041-26484067(-) 26482236-26484067(-)
Potential amino acid sequence	MSRKESKYQSRTVSFHRDDLQVTTKISSIQATDWKTIAISSHSYSFTRAIHIRWILCSAI(+) MIKMIKVRHNNVVPTMALGVQQLKNEQYRTRKIPTAFDEIHEFLDRFYMSRIGIRMLIGQHVAL HDPDPEPGVIGLINTELSPIQVAQAASEDARSICLREYGSAPEIDIYGDPTFTFPYVSSHLHLM LFELVKNSLRAVQERYMNSDKDVPPVRIIVADGAEDVTIKVSDEGGGIPRSGLPRIFTYLYSTA KNPPDMDCPSEGVTMAGYGYGLPISRLYARYFGGDLQIISMEGYGAGLVLGLFPRHQILSRSEE (-) MAMVFQSVACMLDILVVTCKSSLWKDTVRDWYLDSFRDIRYFPEVRNRNDELAFTQMIKMIKVR HNNVVPTMALGVQQLKNEQYRTRKIPTAFDEIHEFLDRFYMSRIGIRMLIGQHVALHDPDPEPG VIGLINTELSPIQVAQAASEDARSICLREYGSAPEIDIYGDPTFTFPYVSSHLHLMLFELVKNS LRAVQERYMNSDKDVPPVRIIVADGAEDVTIKVSDEGGGIPRSGLPRIFTYLYSTAKNPPDMDC PSEGVTMAGYGYGLPISRLYARYFGGDLQIISMEGYGAGLVLGLFPRHQILSRSEE*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

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

circRNA

Detail information of Os07g0637300_circ_g.2

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