Plant Circular RNA Database

Detail information of Os06g0731100_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os06g0731100_circ_g.2
					
						ID in PlantcircBase
						osa_circ_032522
					
						Alias
						Os_ciR4042
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr6: 31164835-31166434  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Os06g0731100						
					
						Parent gene annotation
						
							Zinc finger, PHD-type domain containing protein. (Os06t0731100-0
0)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os06g0731100_circ_g.1 						
					
						Support reads
						2
					
						Tissues
						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
						Os06t0731100-00:2

General Information
CircRNA Name	Os06g0731100_circ_g.2
ID in PlantcircBase	osa_circ_032522
Alias	Os_ciR4042
Organism	Oryza sativa
Position	chr6: 31164835-31166434 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	find_circ
Parent gene	Os06g0731100
Parent gene annotation	Zinc finger, PHD-type domain containing protein. (Os06t0731100-0 0)
Parent gene strand	-
Alternative splicing	Os06g0731100_circ_g.1
Support reads	2
Tissues	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	Os06t0731100-00:2

			
						 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  
						
							GCATTGTGGTTATATGCCAAAGAACTTTCTCTCTGTTGTCTATTCTCACAATACCGACAACACC
AAGTTCCCCTTGGGATAGTAGTAAAGCCAACACACTatggaaaattgcaactgctttggagaga
accaatttactgtctgctgaacttttgtccttcaaaaccctccatctaacatcaagatctccat
ctttattt

									
								

					

						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: 570
Transcript exons: 31164835-31165177,31166208-31166434
ATGGAAAATTGCAACTGCTTTGGAGAGAACCAATTTACTGTCTGCTGAACTTTTGTCCTTCAAA
ACCCTCCATCTAACATCAAGATCTCCATCTTTATTTAGAGCTTTCTGTTCATATTTCCTCTTTA
TAATTTCTACATCTACAGAAGAAATAGGCTCTGCTCCACGGCTAAGTAAGTCCTTCAGTGTCTC
GCTGATCCTAACGCAGTCCGCAGTACAATACCATGCTCCCTCAGGCAAGGCCTGCAACAGCCCA
TATTAATATCGATCTTGGTTTATGCTGAAAACTTATTGATATATATCAGGCAAGGAATATCACC
GTCAAATCAGCCATATTGTGTTCCAATGGATGAACTTACCTGCACAGTGCACAGCCACCAAATC
CAGTCACTGGTGTTGTGGCAATGCGTATGGACCTTGTAAATATTTGTTCCATTGGATCAATTCC
GTCAATCCTCCCAGCAGCTATTGCATTGTGGTTATATGCCAAAGAACTTTCTCTCTGTTGTCTA
TTCTCACAATACCGACAACACCAAGTTCCCCTTGGGATAGTAGTAAAGCCAACACACT
						
					

						Genomic sequence
						
							ATGGAAAATTGCAACTGCTTTGGAGAGAACCAATTTACTGTCTGCTGAACTTTTGTCCTTCAAA
ACCCTCCATCTAACATCAAGATCTCCATCTTTATTTAGAGCTTTCTGTTCATATTTCCTCTTTA
TAATTTCTACATCTACAGAAGAAATAGGCTCTGCTCCACGGCTAAGTAAGTCCTTCAGTGTCTC
GCTGATCCTAACGCAGTCCGCAGTACAATACCATGCTCCCTCAGGCAAGGCCTGCAACAGCCCA
TATTAATATCGATCTTGGTTTATGCTGAAAACTTATTGATATATATCAGGCAAGGAATATCACC
GTCAAATCAGCCATATTGTGTTCCTTCAGGCAACCAATATGGAATTCCCTCCCACACTGGACAA
ATAACAATGTATGATTGGAACAGCTCAAAAGCATCATGATAACACGATACACATGAATCATGAA
AAACAACATCAATATCAGAATTCACACTGGTGAGTATGATATATGAGATTGCAAACATACTTGG
TCACAGAGCAGCACAGTTCTCGCACTGAATTTCTTTTTGCTGAAATCATGGAGCCTGCACAAAA
AAAAGGACAAACTCCATATATTATGGACAAGAAAGAAAAGTCTCATTGGAGAAATAAATCCCAA
TTAACAGCGTAGAGAAATTACAAAGCAGTATCCTAGGTCAGTCAGATTGACACTCAGAATGCAA
TGAAAACAAATATGTCTGATTTGGTATGTGCAACGAGTGTTCACAGTCCTCTTTTGTAGCAGTA
CTTAACAATCAGTCGAGAAATGAGCACCAAAATGTGAACTGGACAACTTCCCATAACCGGAAAC
AGAGGAATCATTCTGATCTGACCAATTCTAAGATATCAAGAATCAGCAAGAAACTTGGTAGGGG
ATAGAATCAGAGAGGGGGTAGAAGAACAGGAGAGGAATCAGGATTTCATTTCATTTTCTTTATG
TTCTATCAGTTGCTACAAACTTCCCTCTGATACCCTCCAAATACACTGGCAGATTTGACTCACT
GGTCTAGTACTGCCAGCTCATCATCATAATCTGGCCTACTTCGACTTAATACACTCTGCTTGTC
CATGAATCCTGACATACTATTCAATTTGAATGTTTGCACTGCTGAGCATTCACCATACAGATCA
ATGAAGAAGCGTCCAATGAAGTGGAAATAAGAAAAGAAAAGAAACATTTGGATATTGAGCTTCC
CTAGCTCCAGAAGTCATATATGCTATAGGCAAAGTTATCTGGTAACAACTTGCCGAATTTCATA
TGTTGGCAGAGGATAATTTATATGGAAAATGGACAGAACATATACTGCATAAAAAGGACAAACA
TGCATAATATTGCTGACTGAATAGAAGACCAATGGATGAACTTACCTGCACAGTGCACAGCCAC
CAAATCCAGTCACTGGTGTTGTGGCAATGCGTATGGACCTTGTAAATATTTGTTCCATTGGATC
AATTCCGTCAATCCTCCCAGCAGCTATTGCATTGTGGTTATATGCCAAAGAACTTTCTCTCTGT
TGTCTATTCTCACAATACCGACAACACCAAGTTCCCCTTGGGATAGTAGTAAAGCCAACACACT
						
					

			
		

Sequences
Splice junction sequence	GCATTGTGGTTATATGCCAAAGAACTTTCTCTCTGTTGTCTATTCTCACAATACCGACAACACC AAGTTCCCCTTGGGATAGTAGTAAAGCCAACACACTatggaaaattgcaactgctttggagaga accaatttactgtctgctgaacttttgtccttcaaaaccctccatctaacatcaagatctccat ctttattt
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: 570 Transcript exons: 31164835-31165177,31166208-31166434 ATGGAAAATTGCAACTGCTTTGGAGAGAACCAATTTACTGTCTGCTGAACTTTTGTCCTTCAAA ACCCTCCATCTAACATCAAGATCTCCATCTTTATTTAGAGCTTTCTGTTCATATTTCCTCTTTA TAATTTCTACATCTACAGAAGAAATAGGCTCTGCTCCACGGCTAAGTAAGTCCTTCAGTGTCTC GCTGATCCTAACGCAGTCCGCAGTACAATACCATGCTCCCTCAGGCAAGGCCTGCAACAGCCCA TATTAATATCGATCTTGGTTTATGCTGAAAACTTATTGATATATATCAGGCAAGGAATATCACC GTCAAATCAGCCATATTGTGTTCCAATGGATGAACTTACCTGCACAGTGCACAGCCACCAAATC CAGTCACTGGTGTTGTGGCAATGCGTATGGACCTTGTAAATATTTGTTCCATTGGATCAATTCC GTCAATCCTCCCAGCAGCTATTGCATTGTGGTTATATGCCAAAGAACTTTCTCTCTGTTGTCTA TTCTCACAATACCGACAACACCAAGTTCCCCTTGGGATAGTAGTAAAGCCAACACACT
Genomic sequence	ATGGAAAATTGCAACTGCTTTGGAGAGAACCAATTTACTGTCTGCTGAACTTTTGTCCTTCAAA ACCCTCCATCTAACATCAAGATCTCCATCTTTATTTAGAGCTTTCTGTTCATATTTCCTCTTTA TAATTTCTACATCTACAGAAGAAATAGGCTCTGCTCCACGGCTAAGTAAGTCCTTCAGTGTCTC GCTGATCCTAACGCAGTCCGCAGTACAATACCATGCTCCCTCAGGCAAGGCCTGCAACAGCCCA TATTAATATCGATCTTGGTTTATGCTGAAAACTTATTGATATATATCAGGCAAGGAATATCACC GTCAAATCAGCCATATTGTGTTCCTTCAGGCAACCAATATGGAATTCCCTCCCACACTGGACAA ATAACAATGTATGATTGGAACAGCTCAAAAGCATCATGATAACACGATACACATGAATCATGAA AAACAACATCAATATCAGAATTCACACTGGTGAGTATGATATATGAGATTGCAAACATACTTGG TCACAGAGCAGCACAGTTCTCGCACTGAATTTCTTTTTGCTGAAATCATGGAGCCTGCACAAAA AAAAGGACAAACTCCATATATTATGGACAAGAAAGAAAAGTCTCATTGGAGAAATAAATCCCAA TTAACAGCGTAGAGAAATTACAAAGCAGTATCCTAGGTCAGTCAGATTGACACTCAGAATGCAA TGAAAACAAATATGTCTGATTTGGTATGTGCAACGAGTGTTCACAGTCCTCTTTTGTAGCAGTA CTTAACAATCAGTCGAGAAATGAGCACCAAAATGTGAACTGGACAACTTCCCATAACCGGAAAC AGAGGAATCATTCTGATCTGACCAATTCTAAGATATCAAGAATCAGCAAGAAACTTGGTAGGGG ATAGAATCAGAGAGGGGGTAGAAGAACAGGAGAGGAATCAGGATTTCATTTCATTTTCTTTATG TTCTATCAGTTGCTACAAACTTCCCTCTGATACCCTCCAAATACACTGGCAGATTTGACTCACT GGTCTAGTACTGCCAGCTCATCATCATAATCTGGCCTACTTCGACTTAATACACTCTGCTTGTC CATGAATCCTGACATACTATTCAATTTGAATGTTTGCACTGCTGAGCATTCACCATACAGATCA ATGAAGAAGCGTCCAATGAAGTGGAAATAAGAAAAGAAAAGAAACATTTGGATATTGAGCTTCC CTAGCTCCAGAAGTCATATATGCTATAGGCAAAGTTATCTGGTAACAACTTGCCGAATTTCATA TGTTGGCAGAGGATAATTTATATGGAAAATGGACAGAACATATACTGCATAAAAAGGACAAACA TGCATAATATTGCTGACTGAATAGAAGACCAATGGATGAACTTACCTGCACAGTGCACAGCCAC CAAATCCAGTCACTGGTGTTGTGGCAATGCGTATGGACCTTGTAAATATTTGTTCCATTGGATC AATTCCGTCAATCCTCCCAGCAGCTATTGCATTGTGGTTATATGCCAAAGAACTTTCTCTCTGT TGTCTATTCTCACAATACCGACAACACCAAGTTCCCCTTGGGATAGTAGTAAAGCCAACACACT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.245876844

Conservation Information
Conserved circRNAs	NA
PMCS	0.245876844

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							31166215-31165093(+)
31166270-31164908(+)
						
						Potential amino acid sequence
						
							MNLPAQCTATKSSHWCCGNAYGPCKYLFHWINSVNPPSSYCIVVICQRTFSLLSILTIPTTPSS
PWDSSKANTLWKIATALERTNLLSAELLSFKTLHLTSRSPSLFRAFCSYFLFIISTSTEEIGSA
PRLSKSFSVSLILTQSAVQYHAPSGKACNSPY*(+)
MRMDLVNICSIGSIPSILPAAIALWLYAKELSLCCLFSQYRQHQVPLGIVVKPTHYGKLQLLWR
EPIYCLLNFCPSKPSI*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	31166215-31165093(+) 31166270-31164908(+)
Potential amino acid sequence	MNLPAQCTATKSSHWCCGNAYGPCKYLFHWINSVNPPSSYCIVVICQRTFSLLSILTIPTTPSS PWDSSKANTLWKIATALERTNLLSAELLSFKTLHLTSRSPSLFRAFCSYFLFIISTSTEEIGSA PRLSKSFSVSLILTQSAVQYHAPSGKACNSPY(+) MRMDLVNICSIGSIPSILPAAIALWLYAKELSLCCLFSQYRQHQVPLGIVVKPTHYGKLQLLWR EPIYCLLNFCPSKPSI(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015

circRNA

Detail information of Os06g0731100_circ_g.2

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