Plant Circular RNA Database

Detail information of Os03g0347300_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os03g0347300_circ_g.3
					
						ID in PlantcircBase
						osa_circ_019785
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr3: 12995770-12997463  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os03g0347300						
					
						Parent gene annotation
						
							Zinc finger, CW-type domain containing protein. (Os03t0347300-01
)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os03g0347300_circ_g.4 Os03g0347300_circ_g.5 						
					
						Support reads
						1
					
						Tissues
						shoot
					
						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
						Os03t0347300-01:2

General Information
CircRNA Name	Os03g0347300_circ_g.3
ID in PlantcircBase	osa_circ_019785
Alias	NA
Organism	Oryza sativa
Position	chr3: 12995770-12997463 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os03g0347300
Parent gene annotation	Zinc finger, CW-type domain containing protein. (Os03t0347300-01 )
Parent gene strand	-
Alternative splicing	Os03g0347300_circ_g.4 Os03g0347300_circ_g.5
Support reads	1
Tissues	shoot
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	Os03t0347300-01:2

			
						 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  
						
							TCCTCTTTTTTTGTCTTCTTAGATGTTTTGTGCTCATCTCGATCAATTCCTCTCCTGTTTTTTG
ATTTTGAATGCTTCTTCGATTTTTCTGTAAGATCTCctgcagagttttgcagtttcagaataca
tcttcattgactgagcaacatcgcctgatctcgaattgtccagattaggagtttcccaaagaga
tgcaacat

									
								

					

						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: 1600
Transcript exons: 12995770-12995930,12996025-12997463
CTGCAGAGTTTTGCAGTTTCAGAATACATCTTCATTGACTGAGCAACATCGCCTGATCTCGAAT
TGTCCAGATTAGGAGTTTCCCAAAGAGATGCAACATGCAGAAACTTCAAAGCCGCTTCAAAGTA
CAGGCCCATACTTTCAAGTTCAAGTCCTTTTTCCTTCAAATGATTAGCCTTGTGTTTTAGATCC
CGAGCTTCCTTGAGTGCAAATGCAATCATATTACCATCCCTCCTAATTGGACTCGCAGAATCTC
CATTTTCAACATTGGACCTTAATTGTGTGTGGTTTTTTGAAGCACCTGGTTTTACTCTAGTGGT
GTGAACCTCTGATTTGCCTTCTTTCATATGAGAATGATTATCTTGACCAATAGACTTTTGCATA
TCTTGATTATCAATACTAGGACGTAATTTCTCTTTTCTGGATGACATCTCTATCTGCTTATTTC
CCTCTGAAATCAAGTTACTGGATCCATTTCTACCTTGGCGTGAAGGAGCACTATTTTTACTTTT
ATGTCCAGTGGAATCAGCTGTAGCCCTCGGGTTAAAACAATCCTGCTGATCAGGTTGTAGTGTA
GGGCCATGCATATCCAAGATCTTTTTATCACCAGGGTACAATTGATTATCTACTCTCCCCATAC
CGGAGTTATTTGTAGAACCACGCAGAATGGCTTCACCCACAGCTTGCTGCCCAGTATGTAGTAA
ACCAACTTCGTGGGTTGGATATTTCATTGGGGTATGCAAGATGCTTGAATCAGCATTCAATTCT
CCATCTTTTCCAGTTTTCCTGGCCTTAGAAATCTTATCAGTGTTTGAATTTTTCAGTGGTGATG
AAGATACTGATTCAACGGGAGAGCCCTTTGCTTCTCGAGAATTTTTGTTTCTCCGAGAGCTTGA
GACCTTTGAAGAGCTTGAAGTTGCAACCGTAGAAGACTGAAGACAGGCAACATCCCTCCTAGTG
GGTTCCGCCAAGTTCAAGACCTGTCTGGGAGGTTGATTATCCCATAGTTCTGATGGACCTTCTT
TACAAGTAACAAATTTGTTGTCAGCAACTAGCTCATTATCTTGACGCCTTCCAGCAGAAGAAAA
TAATGCATTTGCATCCTGAACTTCTTCAGGCCTAGCTTCGGACTTCTTTATCTTTGATAATCTC
TCGTTCAAATTCTCATTATCGCCCCCTTTGCTTGTGTGGTCCATTGAACTGAGCCGGTTATCCT
CCCATTCCTTCACTGTCTTCTTTTTGCCAGACAAATCTAATGTTTCTATGCCTGCACGATGTTC
TTTCATCTTCTCATGAAAGGCCACATCATCATCATTAATTCTCTTTGTTTTTTCCAAAATATCA
AACCTTGAAGCTTTTTCCTTGCGTAAAGAAAACTCATCTTGTTCACATGAGTCCTTTGACATTT
TTGCTTTTGCAGATAAAGCTTTGGTTTCATCACGAACTTTGTTGCCAGCTAAATCGTATTCATT
TTTCCAATCTTTGTTAAAGTAATGTCGATCCTCTTTTTTTGTCTTCTTAGATGTTTTGTGCTCA
TCTCGATCAATTCCTCTCCTGTTTTTTGATTTTGAATGCTTCTTCGATTTTTCTGTAAGATCTC
						
					

						Genomic sequence
						
							CTGCAGAGTTTTGCAGTTTCAGAATACATCTTCATTGACTGAGCAACATCGCCTGATCTCGAAT
TGTCCAGATTAGGAGTTTCCCAAAGAGATGCAACATGCAGAAACTTCAAAGCCGCTTCAAAGTA
CAGGCCCATACTTTCAAGTTCAAGTCCTTTTTCCTGCAGGGAAAATTGTCATTAGATACTTCCA
AGCAAAATTGACAGCACAATTATGCTGCCTGAGACAACATTTAACACAATTGGTGTCACCAACC
TTCAAATGATTAGCCTTGTGTTTTAGATCCCGAGCTTCCTTGAGTGCAAATGCAATCATATTAC
CATCCCTCCTAATTGGACTCGCAGAATCTCCATTTTCAACATTGGACCTTAATTGTGTGTGGTT
TTTTGAAGCACCTGGTTTTACTCTAGTGGTGTGAACCTCTGATTTGCCTTCTTTCATATGAGAA
TGATTATCTTGACCAATAGACTTTTGCATATCTTGATTATCAATACTAGGACGTAATTTCTCTT
TTCTGGATGACATCTCTATCTGCTTATTTCCCTCTGAAATCAAGTTACTGGATCCATTTCTACC
TTGGCGTGAAGGAGCACTATTTTTACTTTTATGTCCAGTGGAATCAGCTGTAGCCCTCGGGTTA
AAACAATCCTGCTGATCAGGTTGTAGTGTAGGGCCATGCATATCCAAGATCTTTTTATCACCAG
GGTACAATTGATTATCTACTCTCCCCATACCGGAGTTATTTGTAGAACCACGCAGAATGGCTTC
ACCCACAGCTTGCTGCCCAGTATGTAGTAAACCAACTTCGTGGGTTGGATATTTCATTGGGGTA
TGCAAGATGCTTGAATCAGCATTCAATTCTCCATCTTTTCCAGTTTTCCTGGCCTTAGAAATCT
TATCAGTGTTTGAATTTTTCAGTGGTGATGAAGATACTGATTCAACGGGAGAGCCCTTTGCTTC
TCGAGAATTTTTGTTTCTCCGAGAGCTTGAGACCTTTGAAGAGCTTGAAGTTGCAACCGTAGAA
GACTGAAGACAGGCAACATCCCTCCTAGTGGGTTCCGCCAAGTTCAAGACCTGTCTGGGAGGTT
GATTATCCCATAGTTCTGATGGACCTTCTTTACAAGTAACAAATTTGTTGTCAGCAACTAGCTC
ATTATCTTGACGCCTTCCAGCAGAAGAAAATAATGCATTTGCATCCTGAACTTCTTCAGGCCTA
GCTTCGGACTTCTTTATCTTTGATAATCTCTCGTTCAAATTCTCATTATCGCCCCCTTTGCTTG
TGTGGTCCATTGAACTGAGCCGGTTATCCTCCCATTCCTTCACTGTCTTCTTTTTGCCAGACAA
ATCTAATGTTTCTATGCCTGCACGATGTTCTTTCATCTTCTCATGAAAGGCCACATCATCATCA
TTAATTCTCTTTGTTTTTTCCAAAATATCAAACCTTGAAGCTTTTTCCTTGCGTAAAGAAAACT
CATCTTGTTCACATGAGTCCTTTGACATTTTTGCTTTTGCAGATAAAGCTTTGGTTTCATCACG
AACTTTGTTGCCAGCTAAATCGTATTCATTTTTCCAATCTTTGTTAAAGTAATGTCGATCCTCT
TTTTTTGTCTTCTTAGATGTTTTGTGCTCATCTCGATCAATTCCTCTCCTGTTTTTTGATTTTG
AATGCTTCTTCGATTTTTCTGTAAGATCTC
						
					

			
		

Sequences
Splice junction sequence	TCCTCTTTTTTTGTCTTCTTAGATGTTTTGTGCTCATCTCGATCAATTCCTCTCCTGTTTTTTG ATTTTGAATGCTTCTTCGATTTTTCTGTAAGATCTCctgcagagttttgcagtttcagaataca tcttcattgactgagcaacatcgcctgatctcgaattgtccagattaggagtttcccaaagaga tgcaacat
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: 1600 Transcript exons: 12995770-12995930,12996025-12997463 CTGCAGAGTTTTGCAGTTTCAGAATACATCTTCATTGACTGAGCAACATCGCCTGATCTCGAAT TGTCCAGATTAGGAGTTTCCCAAAGAGATGCAACATGCAGAAACTTCAAAGCCGCTTCAAAGTA CAGGCCCATACTTTCAAGTTCAAGTCCTTTTTCCTTCAAATGATTAGCCTTGTGTTTTAGATCC CGAGCTTCCTTGAGTGCAAATGCAATCATATTACCATCCCTCCTAATTGGACTCGCAGAATCTC CATTTTCAACATTGGACCTTAATTGTGTGTGGTTTTTTGAAGCACCTGGTTTTACTCTAGTGGT GTGAACCTCTGATTTGCCTTCTTTCATATGAGAATGATTATCTTGACCAATAGACTTTTGCATA TCTTGATTATCAATACTAGGACGTAATTTCTCTTTTCTGGATGACATCTCTATCTGCTTATTTC CCTCTGAAATCAAGTTACTGGATCCATTTCTACCTTGGCGTGAAGGAGCACTATTTTTACTTTT ATGTCCAGTGGAATCAGCTGTAGCCCTCGGGTTAAAACAATCCTGCTGATCAGGTTGTAGTGTA GGGCCATGCATATCCAAGATCTTTTTATCACCAGGGTACAATTGATTATCTACTCTCCCCATAC CGGAGTTATTTGTAGAACCACGCAGAATGGCTTCACCCACAGCTTGCTGCCCAGTATGTAGTAA ACCAACTTCGTGGGTTGGATATTTCATTGGGGTATGCAAGATGCTTGAATCAGCATTCAATTCT CCATCTTTTCCAGTTTTCCTGGCCTTAGAAATCTTATCAGTGTTTGAATTTTTCAGTGGTGATG AAGATACTGATTCAACGGGAGAGCCCTTTGCTTCTCGAGAATTTTTGTTTCTCCGAGAGCTTGA GACCTTTGAAGAGCTTGAAGTTGCAACCGTAGAAGACTGAAGACAGGCAACATCCCTCCTAGTG GGTTCCGCCAAGTTCAAGACCTGTCTGGGAGGTTGATTATCCCATAGTTCTGATGGACCTTCTT TACAAGTAACAAATTTGTTGTCAGCAACTAGCTCATTATCTTGACGCCTTCCAGCAGAAGAAAA TAATGCATTTGCATCCTGAACTTCTTCAGGCCTAGCTTCGGACTTCTTTATCTTTGATAATCTC TCGTTCAAATTCTCATTATCGCCCCCTTTGCTTGTGTGGTCCATTGAACTGAGCCGGTTATCCT CCCATTCCTTCACTGTCTTCTTTTTGCCAGACAAATCTAATGTTTCTATGCCTGCACGATGTTC TTTCATCTTCTCATGAAAGGCCACATCATCATCATTAATTCTCTTTGTTTTTTCCAAAATATCA AACCTTGAAGCTTTTTCCTTGCGTAAAGAAAACTCATCTTGTTCACATGAGTCCTTTGACATTT TTGCTTTTGCAGATAAAGCTTTGGTTTCATCACGAACTTTGTTGCCAGCTAAATCGTATTCATT TTTCCAATCTTTGTTAAAGTAATGTCGATCCTCTTTTTTTGTCTTCTTAGATGTTTTGTGCTCA TCTCGATCAATTCCTCTCCTGTTTTTTGATTTTGAATGCTTCTTCGATTTTTCTGTAAGATCTC
Genomic sequence	CTGCAGAGTTTTGCAGTTTCAGAATACATCTTCATTGACTGAGCAACATCGCCTGATCTCGAAT TGTCCAGATTAGGAGTTTCCCAAAGAGATGCAACATGCAGAAACTTCAAAGCCGCTTCAAAGTA CAGGCCCATACTTTCAAGTTCAAGTCCTTTTTCCTGCAGGGAAAATTGTCATTAGATACTTCCA AGCAAAATTGACAGCACAATTATGCTGCCTGAGACAACATTTAACACAATTGGTGTCACCAACC TTCAAATGATTAGCCTTGTGTTTTAGATCCCGAGCTTCCTTGAGTGCAAATGCAATCATATTAC CATCCCTCCTAATTGGACTCGCAGAATCTCCATTTTCAACATTGGACCTTAATTGTGTGTGGTT TTTTGAAGCACCTGGTTTTACTCTAGTGGTGTGAACCTCTGATTTGCCTTCTTTCATATGAGAA TGATTATCTTGACCAATAGACTTTTGCATATCTTGATTATCAATACTAGGACGTAATTTCTCTT TTCTGGATGACATCTCTATCTGCTTATTTCCCTCTGAAATCAAGTTACTGGATCCATTTCTACC TTGGCGTGAAGGAGCACTATTTTTACTTTTATGTCCAGTGGAATCAGCTGTAGCCCTCGGGTTA AAACAATCCTGCTGATCAGGTTGTAGTGTAGGGCCATGCATATCCAAGATCTTTTTATCACCAG GGTACAATTGATTATCTACTCTCCCCATACCGGAGTTATTTGTAGAACCACGCAGAATGGCTTC ACCCACAGCTTGCTGCCCAGTATGTAGTAAACCAACTTCGTGGGTTGGATATTTCATTGGGGTA TGCAAGATGCTTGAATCAGCATTCAATTCTCCATCTTTTCCAGTTTTCCTGGCCTTAGAAATCT TATCAGTGTTTGAATTTTTCAGTGGTGATGAAGATACTGATTCAACGGGAGAGCCCTTTGCTTC TCGAGAATTTTTGTTTCTCCGAGAGCTTGAGACCTTTGAAGAGCTTGAAGTTGCAACCGTAGAA GACTGAAGACAGGCAACATCCCTCCTAGTGGGTTCCGCCAAGTTCAAGACCTGTCTGGGAGGTT GATTATCCCATAGTTCTGATGGACCTTCTTTACAAGTAACAAATTTGTTGTCAGCAACTAGCTC ATTATCTTGACGCCTTCCAGCAGAAGAAAATAATGCATTTGCATCCTGAACTTCTTCAGGCCTA GCTTCGGACTTCTTTATCTTTGATAATCTCTCGTTCAAATTCTCATTATCGCCCCCTTTGCTTG TGTGGTCCATTGAACTGAGCCGGTTATCCTCCCATTCCTTCACTGTCTTCTTTTTGCCAGACAA ATCTAATGTTTCTATGCCTGCACGATGTTCTTTCATCTTCTCATGAAAGGCCACATCATCATCA TTAATTCTCTTTGTTTTTTCCAAAATATCAAACCTTGAAGCTTTTTCCTTGCGTAAAGAAAACT CATCTTGTTCACATGAGTCCTTTGACATTTTTGCTTTTGCAGATAAAGCTTTGGTTTCATCACG AACTTTGTTGCCAGCTAAATCGTATTCATTTTTCCAATCTTTGTTAAAGTAATGTCGATCCTCT TTTTTTGTCTTCTTAGATGTTTTGTGCTCATCTCGATCAATTCCTCTCCTGTTTTTTGATTTTG AATGCTTCTTCGATTTTTCTGTAAGATCTC

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_004816* 						
					
						PMCS
						0.207758889

Conservation Information
Conserved circRNAs	osi_circ_004816*
PMCS	0.207758889

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							12997436-12995842(+)
12997271-12997408(-)
						
						Potential amino acid sequence
						
							MLLRFFCKISCRVLQFQNTSSLTEQHRLISNCPD*(+)
MSKDSCEQDEFSLRKEKASRFDILEKTKRINDDDVAFHEKMKEHRAGIETLDLSGKKKTVKEWE
DNRLSSMDHTSKGGDNENLNERLSKIKKSEARPEEVQDANALFSSAGRRQDNELVADNKFVTCK
EGPSELWDNQPPRQVLNLAEPTRRDVACLQSSTVATSSSSKVSSSRRNKNSREAKGSPVESVSS
SPLKNSNTDKISKARKTGKDGELNADSSILHTPMKYPTHEVGLLHTGQQAVGEAILRGSTNNSG
MGRVDNQLYPGDKKILDMHGPTLQPDQQDCFNPRATADSTGHKSKNSAPSRQGRNGSSNLISEG
NKQIEMSSRKEKLRPSIDNQDMQKSIGQDNHSHMKEGKSEVHTTRVKPGASKNHTQLRSNVENG
DSASPIRRDGNMIAFALKEARDLKHKANHLKEKGLELESMGLYFEAALKFLHVASLWETPNLDN
SRSGDVAQSMKMYSETAKLCRRSYRKIEEAFKIKKQERN*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	12997436-12995842(+) 12997271-12997408(-)
Potential amino acid sequence	MLLRFFCKISCRVLQFQNTSSLTEQHRLISNCPD(+) MSKDSCEQDEFSLRKEKASRFDILEKTKRINDDDVAFHEKMKEHRAGIETLDLSGKKKTVKEWE DNRLSSMDHTSKGGDNENLNERLSKIKKSEARPEEVQDANALFSSAGRRQDNELVADNKFVTCK EGPSELWDNQPPRQVLNLAEPTRRDVACLQSSTVATSSSSKVSSSRRNKNSREAKGSPVESVSS SPLKNSNTDKISKARKTGKDGELNADSSILHTPMKYPTHEVGLLHTGQQAVGEAILRGSTNNSG MGRVDNQLYPGDKKILDMHGPTLQPDQQDCFNPRATADSTGHKSKNSAPSRQGRNGSSNLISEG NKQIEMSSRKEKLRPSIDNQDMQKSIGQDNHSHMKEGKSEVHTTRVKPGASKNHTQLRSNVENG DSASPIRRDGNMIAFALKEARDLKHKANHLKEKGLELESMGLYFEAALKFLHVASLWETPNLDN SRSGDVAQSMKMYSETAKLCRRSYRKIEEAFKIKKQERN(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os03g0347300_circ_g.3

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