Plant Circular RNA Database

Detail information of Os07g0571100_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os07g0571100_circ_g.3
					
						ID in PlantcircBase
						osa_circ_034447
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr7: 23052781-23053872  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os07g0571100						
					
						Parent gene annotation
						
							Conserved hypothetical protein. (Os07t0571100-01);Hypothetical c
onserved gene. (Os07t0571100-02);Hypothetical conserved gene. (O
s07t0571100-03)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os07g0571100_circ_g.4 Os07g0571100_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
						Os07t0571100-02:4
Os07t0571100-01:4

General Information
CircRNA Name	Os07g0571100_circ_g.3
ID in PlantcircBase	osa_circ_034447
Alias	NA
Organism	Oryza sativa
Position	chr7: 23052781-23053872 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os07g0571100
Parent gene annotation	Conserved hypothetical protein. (Os07t0571100-01);Hypothetical c onserved gene. (Os07t0571100-02);Hypothetical conserved gene. (O s07t0571100-03)
Parent gene strand	-
Alternative splicing	Os07g0571100_circ_g.4 Os07g0571100_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	Os07t0571100-02:4 Os07t0571100-01:4

			
						 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  
						
							CCGCTGGCATCCTCTGCACCATCTTATCATCCTCCAAATTGATCTCCAGCCCTCTCCGTGGCCT
CTCTGCGTCTTTCTTTTCGGAATTTCCTCTCGCAGCcagcatgttcggcacgggaccgggttgt
tgtgcttcatgagccggaggttgctttctttggcttgactcagcaacagcagcattgttcattg
ctgcttta

									
								

					

						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: 834
Transcript exons: 23052781-23053215,23053296-23053380,23053467-23053536,23
053629-23053872
CAGCATGTTCGGCACGGGACCGGGTTGTTGTGCTTCATGAGCCGGAGGTTGCTTTCTTTGGCTT
GACTCAGCAACAGCAGCATTGTTCATTGCTGCTTTATCCTTTGATAGACTCCCCTGGAAAGGAG
AGGTAGCCATTGAAGGAGCCTTGGCTTCTTGCAGGGGGGCGTGGGCCCTCACAGGGTAGCTCCC
CTGCATTGGATTCACAAGAAGGGAGGCAGCCTCCGCTGGCGGCACCACACCCATGTTGAATGGT
CGTGGACCAAAGAATGGCGCCGCCGATCTACTGGCGGCGGCGGCTGCCGCTGCTGCCGTCGCCG
GTGTCCAGAAGTTCTGCATCTTTGCTGTCACTTGCTGGTTGTACCTGATCTGCTGAGCGATGAA
ACAATGCGTAGCACAGCGCTTTGGCCGTACTGGAGGTAGCAATGCAGCATGCTGTAATCCAGCA
GAAGACCCTGGCTTGACATCCATAGGATGATGAAGACCAGCAGCTGATAGTGCCGGTACAGGAC
CGAGGTAACCAAATGGTGGAAAACTCCCCAGCCAACTTCCAACAGGTATCGGCATAGGTGGTGT
AACAGCAGGCATTGCAGATTTTTCATGCTTTATCTCATTCTTAGGTTTCTGTTGCTGCAATGCC
GGCTGTGGCCGTCGTTCTGATGGGGACTTTTCGTCACCAAGGCTGGGCTTCTCCAAATCCAATT
GCAGCGTGAGTTTCTTTGGAGCAACCTCATCCGCTGGCATCCTCTGCACCATCTTATCATCCTC
CAAATTGATCTCCAGCCCTCTCCGTGGCCTCTCTGCGTCTTTCTTTTCGGAATTTCCTCTCGCA
GC
						
					

						Genomic sequence
						
							CAGCATGTTCGGCACGGGACCGGGTTGTTGTGCTTCATGAGCCGGAGGTTGCTTTCTTTGGCTT
GACTCAGCAACAGCAGCATTGTTCATTGCTGCTTTATCCTTTGATAGACTCCCCTGGAAAGGAG
AGGTAGCCATTGAAGGAGCCTTGGCTTCTTGCAGGGGGGCGTGGGCCCTCACAGGGTAGCTCCC
CTGCATTGGATTCACAAGAAGGGAGGCAGCCTCCGCTGGCGGCACCACACCCATGTTGAATGGT
CGTGGACCAAAGAATGGCGCCGCCGATCTACTGGCGGCGGCGGCTGCCGCTGCTGCCGTCGCCG
GTGTCCAGAAGTTCTGCATCTTTGCTGTCACTTGCTGGTTGTACCTGATCTGCTGAGCGATGAA
ACAATGCGTAGCACAGCGCTTTGGCCGTACTGGAGGTAGCAATGCAGCATGCTGCAATTAAAAA
AGAAATCAGTGCTTGGAAGGAGGTCAAAACGCAGAGAACCATATCTAGGCTGAAATGAGAAGCA
AACCTGTAATCCAGCAGAAGACCCTGGCTTGACATCCATAGGATGATGAAGACCAGCAGCTGAT
AGTGCCGGTACAGGACCGAGGTAACTGGGAGGTCAGGAAACAGCAAGCTTTAGAACAAAAATTC
CTCTGGGGGCAAGAGTGTAACACATCAATCAGCCAAGAAAACTCACCCAAATGGTGGAAAACTC
CCCAGCCAACTTCCAACAGGTATCGGCATAGGTGGTGTAACAGCAGGCATTGCTGCAAGAGAGG
ATGAATTCCAGATGAGAAAACTCCCACATTTCGAAAACCAAAAGAACCAAATTTGCAAACGAAT
ATAGCAAAATTCTTACCAGATTTTTCATGCTTTATCTCATTCTTAGGTTTCTGTTGCTGCAATG
CCGGCTGTGGCCGTCGTTCTGATGGGGACTTTTCGTCACCAAGGCTGGGCTTCTCCAAATCCAA
TTGCAGCGTGAGTTTCTTTGGAGCAACCTCATCCGCTGGCATCCTCTGCACCATCTTATCATCC
TCCAAATTGATCTCCAGCCCTCTCCGTGGCCTCTCTGCGTCTTTCTTTTCGGAATTTCCTCTCG
CAGC
						
					

			
		

Sequences
Splice junction sequence	CCGCTGGCATCCTCTGCACCATCTTATCATCCTCCAAATTGATCTCCAGCCCTCTCCGTGGCCT CTCTGCGTCTTTCTTTTCGGAATTTCCTCTCGCAGCcagcatgttcggcacgggaccgggttgt tgtgcttcatgagccggaggttgctttctttggcttgactcagcaacagcagcattgttcattg ctgcttta
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: 834 Transcript exons: 23052781-23053215,23053296-23053380,23053467-23053536,23 053629-23053872 CAGCATGTTCGGCACGGGACCGGGTTGTTGTGCTTCATGAGCCGGAGGTTGCTTTCTTTGGCTT GACTCAGCAACAGCAGCATTGTTCATTGCTGCTTTATCCTTTGATAGACTCCCCTGGAAAGGAG AGGTAGCCATTGAAGGAGCCTTGGCTTCTTGCAGGGGGGCGTGGGCCCTCACAGGGTAGCTCCC CTGCATTGGATTCACAAGAAGGGAGGCAGCCTCCGCTGGCGGCACCACACCCATGTTGAATGGT CGTGGACCAAAGAATGGCGCCGCCGATCTACTGGCGGCGGCGGCTGCCGCTGCTGCCGTCGCCG GTGTCCAGAAGTTCTGCATCTTTGCTGTCACTTGCTGGTTGTACCTGATCTGCTGAGCGATGAA ACAATGCGTAGCACAGCGCTTTGGCCGTACTGGAGGTAGCAATGCAGCATGCTGTAATCCAGCA GAAGACCCTGGCTTGACATCCATAGGATGATGAAGACCAGCAGCTGATAGTGCCGGTACAGGAC CGAGGTAACCAAATGGTGGAAAACTCCCCAGCCAACTTCCAACAGGTATCGGCATAGGTGGTGT AACAGCAGGCATTGCAGATTTTTCATGCTTTATCTCATTCTTAGGTTTCTGTTGCTGCAATGCC GGCTGTGGCCGTCGTTCTGATGGGGACTTTTCGTCACCAAGGCTGGGCTTCTCCAAATCCAATT GCAGCGTGAGTTTCTTTGGAGCAACCTCATCCGCTGGCATCCTCTGCACCATCTTATCATCCTC CAAATTGATCTCCAGCCCTCTCCGTGGCCTCTCTGCGTCTTTCTTTTCGGAATTTCCTCTCGCA GC
Genomic sequence	CAGCATGTTCGGCACGGGACCGGGTTGTTGTGCTTCATGAGCCGGAGGTTGCTTTCTTTGGCTT GACTCAGCAACAGCAGCATTGTTCATTGCTGCTTTATCCTTTGATAGACTCCCCTGGAAAGGAG AGGTAGCCATTGAAGGAGCCTTGGCTTCTTGCAGGGGGGCGTGGGCCCTCACAGGGTAGCTCCC CTGCATTGGATTCACAAGAAGGGAGGCAGCCTCCGCTGGCGGCACCACACCCATGTTGAATGGT CGTGGACCAAAGAATGGCGCCGCCGATCTACTGGCGGCGGCGGCTGCCGCTGCTGCCGTCGCCG GTGTCCAGAAGTTCTGCATCTTTGCTGTCACTTGCTGGTTGTACCTGATCTGCTGAGCGATGAA ACAATGCGTAGCACAGCGCTTTGGCCGTACTGGAGGTAGCAATGCAGCATGCTGCAATTAAAAA AGAAATCAGTGCTTGGAAGGAGGTCAAAACGCAGAGAACCATATCTAGGCTGAAATGAGAAGCA AACCTGTAATCCAGCAGAAGACCCTGGCTTGACATCCATAGGATGATGAAGACCAGCAGCTGAT AGTGCCGGTACAGGACCGAGGTAACTGGGAGGTCAGGAAACAGCAAGCTTTAGAACAAAAATTC CTCTGGGGGCAAGAGTGTAACACATCAATCAGCCAAGAAAACTCACCCAAATGGTGGAAAACTC CCCAGCCAACTTCCAACAGGTATCGGCATAGGTGGTGTAACAGCAGGCATTGCTGCAAGAGAGG ATGAATTCCAGATGAGAAAACTCCCACATTTCGAAAACCAAAAGAACCAAATTTGCAAACGAAT ATAGCAAAATTCTTACCAGATTTTTCATGCTTTATCTCATTCTTAGGTTTCTGTTGCTGCAATG CCGGCTGTGGCCGTCGTTCTGATGGGGACTTTTCGTCACCAAGGCTGGGCTTCTCCAAATCCAA TTGCAGCGTGAGTTTCTTTGGAGCAACCTCATCCGCTGGCATCCTCTGCACCATCTTATCATCC TCCAAATTGATCTCCAGCCCTCTCCGTGGCCTCTCTGCGTCTTTCTTTTCGGAATTTCCTCTCG CAGC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.278276564

Conservation Information
Conserved circRNAs	NA
PMCS	0.278276564

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							23053796-23052783(-)
23052865-23053646(-)
						
						Potential amino acid sequence
						
							MVQRMPADEVAPKKLTLQLDLEKPSLGDEKSPSERRPQPALQQQKPKNEIKHEKSAMPAVTPPM
PIPVGSWLGSFPPFGYLGPVPALSAAGLHHPMDVKPGSSAGLQHAALLPPVRPKRCATHCFIAQ
QIRYNQQVTAKMQNFWTPATAAAAAAAASRSAAPFFGPRPFNMGVVPPAEAASLLVNPMQGSYP
VRAHAPLQEAKAPSMATSPFQGSLSKDKAAMNNAAVAESSQRKQPPAHEAQQPGPVPNMLAARG
NSEKKDAERPRRGLEINLEDDKMVQRMPADEVAPKKLTLQLDLEKPSLGDEKSPSERRPQPALQ
QQKPKNEIKHEKSAMPAVTPPMPIPVGSWLGSFPPFGYLGPVPALSAAGLHHPMDVKPGSSAGL
QHAALLPPVRPKRCATHCFIAQQIRYNQQVTAKMQNFWTPATAAAAAAAASRSAAPFFGPRPFN
MGVVPPAEAASLLVNPMQGSYPVRAHAPLQEAKAPSMATSPFQGSLSKDKAAMNNAAVAESSQR
KQPPAHEAQQPGPVPNMLAARGNSEKKDAERPRRGLEINLEDDKMVQRMPADEVAPKKLTLQLD
LEKPSLGDEKSPSERRPQPALQQQKPKNEIKHEKSAMPAVTPPMPIPVGSWLGSFPPFGYLGPV
PALSAAGLHHPMDVKPGSSAGLQHAALLPPVRPKRCATHCFIAQQIRYNQQVTAKMQNFWTPAT
AAAAAAAASRSAAPFFGPRPFNMGVVPPAEAASLLVNPMQGSYPVRAHAPLQEAKAPSMATSPF
QGSLSKDKAAMNNAAVAESSQRKQPPAHEAQQPGPVPNMLAARGNSEKKDAERPRRGLEINLED
DKMVQRMPADEVAPKKLTLQLDLEKPSLGDEKSPSERRPQPALQQQKPKNEIKHEKSAMPAVTP
PMPIPVGSWLGSFPPFGYLGPVPALSAAGLHHPMDVKPGSSAGLQHAALLPPVRPKRCATHCFI
AQQIRYNQQVTAKMQNFWTPATAAAAAAAASRSAAPFFGPRPFNMGVVPPAEAASLLVNPMQGS
YPVRAHAPLQEAKAPSMATSPFQGSLSKDKAAMNNAAVAESSQRKQPPAHEAQQPGPVPNML(-
)
MLLLLSQAKESNLRLMKHNNPVPCRTCWLREEIPKRKTQRGHGEGWRSIWRMIRWCRGCQRMRL
LQRNSRCNWIWRSPALVTKSPHQNDGHSRHCSNRNLRMR*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	23053796-23052783(-) 23052865-23053646(-)
Potential amino acid sequence	MVQRMPADEVAPKKLTLQLDLEKPSLGDEKSPSERRPQPALQQQKPKNEIKHEKSAMPAVTPPM PIPVGSWLGSFPPFGYLGPVPALSAAGLHHPMDVKPGSSAGLQHAALLPPVRPKRCATHCFIAQ QIRYNQQVTAKMQNFWTPATAAAAAAAASRSAAPFFGPRPFNMGVVPPAEAASLLVNPMQGSYP VRAHAPLQEAKAPSMATSPFQGSLSKDKAAMNNAAVAESSQRKQPPAHEAQQPGPVPNMLAARG NSEKKDAERPRRGLEINLEDDKMVQRMPADEVAPKKLTLQLDLEKPSLGDEKSPSERRPQPALQ QQKPKNEIKHEKSAMPAVTPPMPIPVGSWLGSFPPFGYLGPVPALSAAGLHHPMDVKPGSSAGL QHAALLPPVRPKRCATHCFIAQQIRYNQQVTAKMQNFWTPATAAAAAAAASRSAAPFFGPRPFN MGVVPPAEAASLLVNPMQGSYPVRAHAPLQEAKAPSMATSPFQGSLSKDKAAMNNAAVAESSQR KQPPAHEAQQPGPVPNMLAARGNSEKKDAERPRRGLEINLEDDKMVQRMPADEVAPKKLTLQLD LEKPSLGDEKSPSERRPQPALQQQKPKNEIKHEKSAMPAVTPPMPIPVGSWLGSFPPFGYLGPV PALSAAGLHHPMDVKPGSSAGLQHAALLPPVRPKRCATHCFIAQQIRYNQQVTAKMQNFWTPAT AAAAAAAASRSAAPFFGPRPFNMGVVPPAEAASLLVNPMQGSYPVRAHAPLQEAKAPSMATSPF QGSLSKDKAAMNNAAVAESSQRKQPPAHEAQQPGPVPNMLAARGNSEKKDAERPRRGLEINLED DKMVQRMPADEVAPKKLTLQLDLEKPSLGDEKSPSERRPQPALQQQKPKNEIKHEKSAMPAVTP PMPIPVGSWLGSFPPFGYLGPVPALSAAGLHHPMDVKPGSSAGLQHAALLPPVRPKRCATHCFI AQQIRYNQQVTAKMQNFWTPATAAAAAAAASRSAAPFFGPRPFNMGVVPPAEAASLLVNPMQGS YPVRAHAPLQEAKAPSMATSPFQGSLSKDKAAMNNAAVAESSQRKQPPAHEAQQPGPVPNML(- ) MLLLLSQAKESNLRLMKHNNPVPCRTCWLREEIPKRKTQRGHGEGWRSIWRMIRWCRGCQRMRL LQRNSRCNWIWRSPALVTKSPHQNDGHSRHCSNRNLRMR*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os07g0571100_circ_g.3

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