Plant Circular RNA Database

Detail information of Os09g0401300_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os09g0401300_circ_g.1
					
						ID in PlantcircBase
						osa_circ_039118
					
						Alias
						Os09circ04467/Os_ciR1526
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr9: 14058155-14059565  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, CIRI, PcircRNA_finder, SMALT, Segemehl, circRNA_finder, find_circ
					
						Parent gene
						
							Os09g0401300						
					
						Parent gene annotation
						
							Tify domain containing protein. (Os09t0401300-01);Similar to ZIM
 motif family protein. (Os09t0401300-02);Similar to ZIM motif fa
mily protein. (Os09t0401300-03)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os09g0401300_circ_g.2 						
					
						Support reads
						5/7/30
					
						Tissues
						leaf/root/shoot, root, seed, pistil
					
						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
						Os09t0401300-01:5
Os09t0401300-03:1
Os09t0401300-02:6

General Information
CircRNA Name	Os09g0401300_circ_g.1
ID in PlantcircBase	osa_circ_039118
Alias	Os09circ04467/Os_ciR1526
Organism	Oryza sativa
Position	chr9: 14058155-14059565 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, CIRI, PcircRNA_finder, SMALT, Segemehl, circRNA_finder, find_circ
Parent gene	Os09g0401300
Parent gene annotation	Tify domain containing protein. (Os09t0401300-01);Similar to ZIM motif family protein. (Os09t0401300-02);Similar to ZIM motif fa mily protein. (Os09t0401300-03)
Parent gene strand	-
Alternative splicing	Os09g0401300_circ_g.2
Support reads	5/7/30
Tissues	leaf/root/shoot, root, seed, pistil
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	Os09t0401300-01:5 Os09t0401300-03:1 Os09t0401300-02:6

			
						 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  
						
							GCCGCCGACGACGACGACCTGAACGACATCAACGCGGCCCTGCTCGCGAACGACCAATCCATCG
CCGCCGCTGCCGCTCCTCCTCCTGCTCCAAAGTAATctttcctttcgcttctccaagaatcggg
caagggatgccttccgcgcttgagggacagctgcaatgaaaaaaagagaaataaatcatacact
gtaacaat

									
								

					

						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: 172
Transcript exons: 14058155-14058207,14059447-14059565
CTTTCCTTTCGCTTCTCCAAGAATCGGGCAAGGGATGCCTTCCGCGCTTGAGGCTCCCTCGCCG
CCGCCGCCGCCGCCGACGACGACGACCTGAACGACATCAACGCGGCCCTGCTCGCGAACGACCA
ATCCATCGCCGCCGCTGCCGCTCCTCCTCCTGCTCCAAAGTAAT
Transcript length: 979
Transcript exons: 14058155-14058212,14058322-14058682,14058780-14058864,14
058971-14059242,14059363-14059565
CTTTCCTTTCGCTTCTCCAAGAATCGGGCAAGGGATGCCTTCCGCGCTTGAGGGACAGCTCTCG
GCATAATAGCTGCAGCAGTGGTAGTGGCTAGTGTCTCAGGCTGGGCCGGAGGAGGCAAACTTGT
GGGAGGAACAACCAATGGACCAGAAGATTTTGTCACGTTGGAGTCGACATTAGAGCTTGAGGCA
CTCCGTGGAAGACTTGTAGCTTGTGACACAACGGAGATAGGTTTGGAAATGGCTGGCACGGGAG
ACGAAACAAGCTGCGGTTTCTGAAGCATCATCGGTTTTGTAGGCGAAACCTCAGGTACAGTGAC
TTTTGCTGGGGGAAAGACATGTGCCTCTGGCATACGAGCAACGGTAGTCGGCGCACTTGGAAGA
GATCCTCTGCTAGCTAAGAACATGAGTTCCTGAGCCTTCTCCGGCGAGACGTTGTTGAATACAT
TTACAGAACCAGCATAAAAGATGGTCAATTGCGCCGCCTTCGCCTTCGGCATGTCCCTTGTTCC
GTACACACCGACCGTAGATCCGGCAACCGCATTGCCCATGGCGAAAGGCGGCTGCTTGAACGCG
CCACCACCGGCGCCGACGGCATTCGGGAGGTTGGGCGAGCTCTGAACCCTGAACATCGGATTGT
TCGGGTTGAACGGCGACGAGGCCGGAATCACTCTAGCCCCATTCAGAACATGCGGTGGCTGGCC
ACGGTGAGCGCCGTGCACGGCGGCGGCGGCGGCGTACTGCGGGATGCCGTGGCTCTCGGCACCA
AACGATTTCTGTCTTGCGAGGACGTGCGAGGCCTGCTGCATCTTGGCGCCGTCTAACGCCGAGA
AGTGTGGGAACGCGAGCTCCCTCGTCTCCTCCCTCGCCGCCGCCGCCGCCGCCGACGACGACGA
CCTGAACGACATCAACGCGGCCCTGCTCGCGAACGACCAATCCATCGCCGCCGCTGCCGCTCCT
CCTCCTGCTCCAAAGTAAT
						
					

						Genomic sequence
						
							CTTTCCTTTCGCTTCTCCAAGAATCGGGCAAGGGATGCCTTCCGCGCTTGAGGGACAGCTGCAA
TGAAAAAAAGAGAAATAAATCATACACTGTAACAATTCATCTGAAGTTCTAACTACTATCATAA
CATCACAATACAATTCATGCAAGCAATTAATAGGCATACCTCTCGGCATAATAGCTGCAGCAGT
GGTAGTGGCTAGTGTCTCAGGCTGGGCCGGAGGAGGCAAACTTGTGGGAGGAACAACCAATGGA
CCAGAAGATTTTGTCACGTTGGAGTCGACATTAGAGCTTGAGGCACTCCGTGGAAGACTTGTAG
CTTGTGACACAACGGAGATAGGTTTGGAAATGGCTGGCACGGGAGACGAAACAAGCTGCGGTTT
CTGAAGCATCATCGGTTTTGTAGGCGAAACCTCAGGTACAGTGACTTTTGCTGGGGGAAAGACA
TGTGCCTCTGGCATACGAGCAACGGTAGTCGGCGCACTTGGAAGAGATCCTCTGCTAGCTAAGA
ACATGAGTTCCTGAGCCTGCAACAATGAGAAACAGCTATTAAAACATGTCAATTGGTAATAATC
ATCCATAGTACAGCACAAAGATGCACCATCTGTCACAATGAAATCATACCTTCTCCGGCGAGAC
GTTGTTGAATACATTTACAGAACCAGCATAAAAGATGGTCAATTGCGCCGCCTTCGCCTTCGGC
ATGTCCCTATACAAAGCAAGACAAGCTATATATTTCAGTCCAATTTCATCTTTCATTTCCACTC
TCACAAAAGTCACAAACCTCGTGCTCGATAACAGAGCGGATTAGCTACCTTGTTCCGTACACAC
CGACCGTAGATCCGGCAACCGCATTGCCCATGGCGAAAGGCGGCTGCTTGAACGCGCCACCACC
GGCGCCGACGGCATTCGGGAGGTTGGGCGAGCTCTGAACCCTGAACATCGGATTGTTCGGGTTG
AACGGCGACGAGGCCGGAATCACTCTAGCCCCATTCAGAACATGCGGTGGCTGGCCACGGTGAG
CGCCGTGCACGGCGGCGGCGGCGGCGTACTGCGGGATGCCGTGGCTCTCGGCACCAAACGATTT
CTGCAAAAAACATCCACATATCCACAAACTAATTAATTAGGATATCAATATCAAACAGAAATTC
ACAAGCAGCAAGTGAGCAAGAACAAAATCAAGAAGAAGAAGAACAGCGCAAGCCACCTGTCTTG
CGAGGACGTGCGAGGCCTGCTGCATCTTGGCGCCGTCTAACGCCGAGAAGTGTGGGAACGCGAG
CTCCCTCGTCTCCTCCCTCGCCGCCGCCGCCGCCGCCGACGACGACGACCTGAACGACATCAAC
GCGGCCCTGCTCGCGAACGACCAATCCATCGCCGCCGCTGCCGCTCCTCCTCCTGCTCCAAAGT
AAT
						
					

			
		

Sequences
Splice junction sequence	GCCGCCGACGACGACGACCTGAACGACATCAACGCGGCCCTGCTCGCGAACGACCAATCCATCG CCGCCGCTGCCGCTCCTCCTCCTGCTCCAAAGTAATctttcctttcgcttctccaagaatcggg caagggatgccttccgcgcttgagggacagctgcaatgaaaaaaagagaaataaatcatacact gtaacaat
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: 172 Transcript exons: 14058155-14058207,14059447-14059565 CTTTCCTTTCGCTTCTCCAAGAATCGGGCAAGGGATGCCTTCCGCGCTTGAGGCTCCCTCGCCG CCGCCGCCGCCGCCGACGACGACGACCTGAACGACATCAACGCGGCCCTGCTCGCGAACGACCA ATCCATCGCCGCCGCTGCCGCTCCTCCTCCTGCTCCAAAGTAAT Transcript length: 979 Transcript exons: 14058155-14058212,14058322-14058682,14058780-14058864,14 058971-14059242,14059363-14059565 CTTTCCTTTCGCTTCTCCAAGAATCGGGCAAGGGATGCCTTCCGCGCTTGAGGGACAGCTCTCG GCATAATAGCTGCAGCAGTGGTAGTGGCTAGTGTCTCAGGCTGGGCCGGAGGAGGCAAACTTGT GGGAGGAACAACCAATGGACCAGAAGATTTTGTCACGTTGGAGTCGACATTAGAGCTTGAGGCA CTCCGTGGAAGACTTGTAGCTTGTGACACAACGGAGATAGGTTTGGAAATGGCTGGCACGGGAG ACGAAACAAGCTGCGGTTTCTGAAGCATCATCGGTTTTGTAGGCGAAACCTCAGGTACAGTGAC TTTTGCTGGGGGAAAGACATGTGCCTCTGGCATACGAGCAACGGTAGTCGGCGCACTTGGAAGA GATCCTCTGCTAGCTAAGAACATGAGTTCCTGAGCCTTCTCCGGCGAGACGTTGTTGAATACAT TTACAGAACCAGCATAAAAGATGGTCAATTGCGCCGCCTTCGCCTTCGGCATGTCCCTTGTTCC GTACACACCGACCGTAGATCCGGCAACCGCATTGCCCATGGCGAAAGGCGGCTGCTTGAACGCG CCACCACCGGCGCCGACGGCATTCGGGAGGTTGGGCGAGCTCTGAACCCTGAACATCGGATTGT TCGGGTTGAACGGCGACGAGGCCGGAATCACTCTAGCCCCATTCAGAACATGCGGTGGCTGGCC ACGGTGAGCGCCGTGCACGGCGGCGGCGGCGGCGTACTGCGGGATGCCGTGGCTCTCGGCACCA AACGATTTCTGTCTTGCGAGGACGTGCGAGGCCTGCTGCATCTTGGCGCCGTCTAACGCCGAGA AGTGTGGGAACGCGAGCTCCCTCGTCTCCTCCCTCGCCGCCGCCGCCGCCGCCGACGACGACGA CCTGAACGACATCAACGCGGCCCTGCTCGCGAACGACCAATCCATCGCCGCCGCTGCCGCTCCT CCTCCTGCTCCAAAGTAAT
Genomic sequence	CTTTCCTTTCGCTTCTCCAAGAATCGGGCAAGGGATGCCTTCCGCGCTTGAGGGACAGCTGCAA TGAAAAAAAGAGAAATAAATCATACACTGTAACAATTCATCTGAAGTTCTAACTACTATCATAA CATCACAATACAATTCATGCAAGCAATTAATAGGCATACCTCTCGGCATAATAGCTGCAGCAGT GGTAGTGGCTAGTGTCTCAGGCTGGGCCGGAGGAGGCAAACTTGTGGGAGGAACAACCAATGGA CCAGAAGATTTTGTCACGTTGGAGTCGACATTAGAGCTTGAGGCACTCCGTGGAAGACTTGTAG CTTGTGACACAACGGAGATAGGTTTGGAAATGGCTGGCACGGGAGACGAAACAAGCTGCGGTTT CTGAAGCATCATCGGTTTTGTAGGCGAAACCTCAGGTACAGTGACTTTTGCTGGGGGAAAGACA TGTGCCTCTGGCATACGAGCAACGGTAGTCGGCGCACTTGGAAGAGATCCTCTGCTAGCTAAGA ACATGAGTTCCTGAGCCTGCAACAATGAGAAACAGCTATTAAAACATGTCAATTGGTAATAATC ATCCATAGTACAGCACAAAGATGCACCATCTGTCACAATGAAATCATACCTTCTCCGGCGAGAC GTTGTTGAATACATTTACAGAACCAGCATAAAAGATGGTCAATTGCGCCGCCTTCGCCTTCGGC ATGTCCCTATACAAAGCAAGACAAGCTATATATTTCAGTCCAATTTCATCTTTCATTTCCACTC TCACAAAAGTCACAAACCTCGTGCTCGATAACAGAGCGGATTAGCTACCTTGTTCCGTACACAC CGACCGTAGATCCGGCAACCGCATTGCCCATGGCGAAAGGCGGCTGCTTGAACGCGCCACCACC GGCGCCGACGGCATTCGGGAGGTTGGGCGAGCTCTGAACCCTGAACATCGGATTGTTCGGGTTG AACGGCGACGAGGCCGGAATCACTCTAGCCCCATTCAGAACATGCGGTGGCTGGCCACGGTGAG CGCCGTGCACGGCGGCGGCGGCGGCGTACTGCGGGATGCCGTGGCTCTCGGCACCAAACGATTT CTGCAAAAAACATCCACATATCCACAAACTAATTAATTAGGATATCAATATCAAACAGAAATTC ACAAGCAGCAAGTGAGCAAGAACAAAATCAAGAAGAAGAAGAACAGCGCAAGCCACCTGTCTTG CGAGGACGTGCGAGGCCTGCTGCATCTTGGCGCCGTCTAACGCCGAGAAGTGTGGGAACGCGAG CTCCCTCGTCTCCTCCCTCGCCGCCGCCGCCGCCGCCGACGACGACGACCTGAACGACATCAAC GCGGCCCTGCTCGCGAACGACCAATCCATCGCCGCCGCTGCCGCTCCTCCTCCTGCTCCAAAGT AAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_008039* osi_circ_018471 						
					
						PMCS
						0.404780268

Conservation Information
Conserved circRNAs	osi_circ_008039* osi_circ_018471
PMCS	0.404780268

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							14059529-14059141(-)
						
						Potential amino acid sequence
						
							MDWSFASRAALMSFRSSSSAAAAAAREETRELAFPHFSALDGAKMQQASHVLARQKSFGAESHG
IPQYAAAAAVHGAHRGQPPHVLNGARVIPASSPFNPNNPMFRVQSSPNLPNAVGAGGGAFKQPP
FAMGNAVAGSTVGVYGTRDMPKAKAAQLTIFYAGSVNVFNNVSPEKAQELMFLASRGSLPSAPT
TVARMPEAHVFPPAKVTVPEVSPTKPMMLQKPQLVSSPVPAISKPISVVSQATSLPRSASSSNV
DSNVTKSSGPLVVPPTSLPPPAQPETLATTTAAAIMPRAVPQARKASLARFLEKRKERLLWSRR
RSGSGGDGLVVREQGRVDVVQVVVVGGGGGGEGGDEGARVPTLLGVRRRQDAAGLARPRKTEIV
WCREPRHPAVRRRRRRARRSPWPATACSEWG*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	14059529-14059141(-)
Potential amino acid sequence	MDWSFASRAALMSFRSSSSAAAAAAREETRELAFPHFSALDGAKMQQASHVLARQKSFGAESHG IPQYAAAAAVHGAHRGQPPHVLNGARVIPASSPFNPNNPMFRVQSSPNLPNAVGAGGGAFKQPP FAMGNAVAGSTVGVYGTRDMPKAKAAQLTIFYAGSVNVFNNVSPEKAQELMFLASRGSLPSAPT TVARMPEAHVFPPAKVTVPEVSPTKPMMLQKPQLVSSPVPAISKPISVVSQATSLPRSASSSNV DSNVTKSSGPLVVPPTSLPPPAQPETLATTTAAAIMPRAVPQARKASLARFLEKRKERLLWSRR RSGSGGDGLVVREQGRVDVVQVVVVGGGGGGEGGDEGARVPTLLGVRRRQDAAGLARPRKTEIV WCREPRHPAVRRRRRRARRSPWPATACSEWG*(-)
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 Os09g0401300_circ_g.1

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