Plant Circular RNA Database

Detail information of Os01g0617500_circ_g.7

			
						 General Information
					
						CircRNA Name
						Os01g0617500_circ_g.7
					
						ID in PlantcircBase
						osa_circ_002649
					
						Alias
						Os_ciR5912
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr1: 24541205-24544107  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os01g0617500						
					
						Parent gene annotation
						
							Tetratricopeptide-like helical domain containing protein. (Os01t
0617500-01);Similar to predicted protein. (Os01t0617500-02)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os01g0617500_circ_g.1 Os01g0617500_circ_g.2 Os01g0617500_circ_g.3 Os01g0617500_circ_g.4 Os01g0617500_circ_g.5 Os01g0617500_circ_g.6 Os01g0617500_circ_g.8 Os01g0617500_circ_g.9 Os01g0617500_circ_g.10 Os01g0617500_circ_g.11 Os01g0617500_circ_g.12 						
					
						Support reads
						2/2
					
						Tissues
						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
						Os01t0617500-01:7

General Information
CircRNA Name	Os01g0617500_circ_g.7
ID in PlantcircBase	osa_circ_002649
Alias	Os_ciR5912
Organism	Oryza sativa
Position	chr1: 24541205-24544107 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os01g0617500
Parent gene annotation	Tetratricopeptide-like helical domain containing protein. (Os01t 0617500-01);Similar to predicted protein. (Os01t0617500-02)
Parent gene strand	-
Alternative splicing	Os01g0617500_circ_g.1 Os01g0617500_circ_g.2 Os01g0617500_circ_g.3 Os01g0617500_circ_g.4 Os01g0617500_circ_g.5 Os01g0617500_circ_g.6 Os01g0617500_circ_g.8 Os01g0617500_circ_g.9 Os01g0617500_circ_g.10 Os01g0617500_circ_g.11 Os01g0617500_circ_g.12
Support reads	2/2
Tissues	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	Os01t0617500-01:7

			
						 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  
						
							CAGAAGCATTTCACTGTGTTCATATCGCTCATTCTCTGGGGGATAATCATCTTCCAGTGTCCCC
TCATATGCCTCCAATACTTCTATTGCCTTGGAAGAActtcctgggaagcatcctgaagtcctaa
ttgaacgttctagcttaagaaacaattcctccaatatgtttgcctgtcaacaggattcataact
gtcacact

									
								

					

						Assembled circRNA sequence  
						
							NA
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
						
							NA						
					

						Genomic sequence
						
							CTTCCTGGGAAGCATCCTGAAGTCCTAATTGAACGTTCTAGCTTAAGAAACAATTCCTCCAATA
TGTTTGCCTGTCAACAGGATTCATAACTGTCACACTACGAACAGAGAAAAATAAGCACAAAAAA
TGATTTTGAGTAGCATAACTGCTATTACCTTGCCAGGTTGCTCGTACAATGGGCTAAGATCAGA
AAATAGTGATGGTACTCCCTAAAAATATGAGACATGTTAATCAATTGCAACAAAGAGAAACAGT
ATGCTGCCTGGCAAATTGTAAAAGGATATAAGGCTGTACAGTAAAGAGAAACAAATGATTACCA
TAAACGAGACACCTTTTAGAAACTAAAAGTATTTCCTAAAAGTTGCTAAATTTACCTTGGTTAA
TAGGGGTCTGACATAATTATCTGCTGCCTCCTGAAATTTCTCTCCTTCCAGGAAATCAAGGGGT
ATGCGCTGTTGCAATTAGAGACAATTTTAGATTCACAGCTTCTACAGTGCATGCCCCACTTACC
ATATATATGGATAGACAACTTGGAATTCAGAAAATTAGTGTTGCAATATAAAACAAATAAATAC
TACCAATATCAAGATACTGACGTGTGTCCGGAGAGCTCAACAATTTAACATCAAGGAACAAAGA
AAAAATAAAAACAATTTGAGGTGGTTTACCTTAACAGCAGATGACCAACCATATTCTTCTTTAA
GTGAGCTATACAATTCGCATAATCGGTCAACATCATCAGTGGAATACTGACCATTCTCTGAGTA
TAGACCAAGGCACTTTTGAACAGCTATGAAATACCTGATTAAAACCAGTGAAAATAAATTAATC
CCTAGAGTATTAACAAGAAGGGGTACAATGTAAGTCAGAAGAGTGCTATAGACGCAAGTATCTA
TAATATTTCCCCTGAATACAAGGGAATTCCAAAATTGAGTTGATATTAAGTCATAGAGGAAGAT
TGTAGCAGCAAAGATGCATCAAACTTATCCTAACACTTAGCCTTACAGCGTCACTCCACCTAAA
GGATGAGCCCAGTTGGCATGGATGGTTCCGCAAGTTTTATATGCAACTATCTAGTGGGACTAAG
CCAACCAATAAGAGCAGGCACATGGATGCCTATTGTTGTGACCTTGAGTTTGCGAAACCATATA
AGCACCTGTAAGGTACTTGCACTGAAAGTTTGGACTCTTAGATGGATGCTTTGCTGACATGGTA
TACTAAGCACCTCCCTTCTTTGCCACTTCTTCCATTGTACAAGTCTTAGCAGACAGAAAATTGG
TTCATATCGGGCCACATATTTCTGATACCATGTTGCATACCAGGTAAATTCTGCAAAACCAGAG
GCTCTCATCCTCACTTATCTTAAAAGGGCAAGCCAAGTTGGTAAGCATGATTTTCCCATTGTTT
ATATGGGACTATTGGGTTTAAACCCACCACCCACCACGTACCAACTAGAACTAAGAACCCTCCC
ACAGGCTAAATTTGCACCATCATGTTACAGAAATATAAATGGTATAGCTCCCCTGTCCTCCTAT
GAAGAGCATGTGATATACATATATCAAGCAAAGAGAGCACAAACACAAGAAATAACTTAAATCA
ATTCCATGCAAAGTTTTGCAACATGAACATTAAATACGTTAAGGACTGAAGGGTCAGAATCAGT
CATGATAACATATGATTTCTGCCTCATGTATAGTTCATGTGGTTGCAGACCAGATTGTTGTCAC
GATTAACTACCAAATGCAAGTACTGATAAAATTGGTTGAATTAGCCAAATTGACCAACACTTAT
TTATAAAATAGAGCTAGATTATCATATAACTCATAAACTGGGAGAGAGTATTTTACAGAAGATC
CTAAAGCATGCATAATTACAAAATTAAAGATTTAAAAATAACAATAATCTAAAAATAAGGTATT
AATTGGAATAAAAATGGAATGTAAACAGCATATTAGAATAAGTCCATGTTGAAATTCAAAACCC
ATACACACTATTTTCAGAGTTTACCAGAAGACGCAAAGAAATTTAAGTGAGGAAAAAAAAAAAG
CAGCACAGGTGCCTCACTTGTAGTTATCAGGATTCATGAAAAGCAGGGACCTATATGTTTTCTC
AGCCTCCTCAAAGCGGCCAAGTTTCAACAAAATGCAGGCCATTTGTTCTTTGAACGATAGCTTG
TCAACCTAGAAGAAAAAAATAATTATGTGCGCCCATCTTTCTGAGTAATATTTTTCCTCTTTAC
ATGATTGAGAAAGATAAGACTTACAATTTTGCTCTCCTTCTTCTGCATCTCCTCAAGAGCTCTG
TCCAGCATCCCACATTCCTCGAACAATGAAATCTGTGGAACAGCAATAACATTACATAACAAGT
AAAGATGAAGTGAGTATTAAAATAACGCAAATTCTTTCCACTTTCTAGTTTCCAGAGCATGAAA
AGAACTTAATACATAAATAAAAGTGATGGCATAAAATCAGAACATAAGTAAAGAATCAATTTCA
TTCAGAAAGTTAGATTGTTTGAAGAAGAGATGGCCGGCAGCAAGTTTTCAACTAATATGAACCA
GAGAGTGAATATAAATCATCATTCGAACACTTCGTATTTACAGACAGCATTCTGCAAAACCAGC
ATCAAAATACAAAATACAACGCTACACAAATTACAGTATGACCAACGCATATAATCCAGACAGA
TATCATATATGTCCTGATAATTCGTTGTTCATGAAAGTGTGAATGTGTATAAGTACAGCATTGC
TACCGCAATCATATCCCAGAAATACAAGAGAATTTTGACAGGCACCTTATACAGAAGCATTTCA
CTGTGTTCATATCGCTCATTCTCTGGGGGATAATCATCTTCCAGTGTCCCCTCATATGCCTCCA
ATACTTCTATTGCCTTGGAAGAA
						
					

			
		

Sequences
Splice junction sequence	CAGAAGCATTTCACTGTGTTCATATCGCTCATTCTCTGGGGGATAATCATCTTCCAGTGTCCCC TCATATGCCTCCAATACTTCTATTGCCTTGGAAGAActtcctgggaagcatcctgaagtcctaa ttgaacgttctagcttaagaaacaattcctccaatatgtttgcctgtcaacaggattcataact gtcacact
Assembled circRNA sequence	NA 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	NA
Genomic sequence	CTTCCTGGGAAGCATCCTGAAGTCCTAATTGAACGTTCTAGCTTAAGAAACAATTCCTCCAATA TGTTTGCCTGTCAACAGGATTCATAACTGTCACACTACGAACAGAGAAAAATAAGCACAAAAAA TGATTTTGAGTAGCATAACTGCTATTACCTTGCCAGGTTGCTCGTACAATGGGCTAAGATCAGA AAATAGTGATGGTACTCCCTAAAAATATGAGACATGTTAATCAATTGCAACAAAGAGAAACAGT ATGCTGCCTGGCAAATTGTAAAAGGATATAAGGCTGTACAGTAAAGAGAAACAAATGATTACCA TAAACGAGACACCTTTTAGAAACTAAAAGTATTTCCTAAAAGTTGCTAAATTTACCTTGGTTAA TAGGGGTCTGACATAATTATCTGCTGCCTCCTGAAATTTCTCTCCTTCCAGGAAATCAAGGGGT ATGCGCTGTTGCAATTAGAGACAATTTTAGATTCACAGCTTCTACAGTGCATGCCCCACTTACC ATATATATGGATAGACAACTTGGAATTCAGAAAATTAGTGTTGCAATATAAAACAAATAAATAC TACCAATATCAAGATACTGACGTGTGTCCGGAGAGCTCAACAATTTAACATCAAGGAACAAAGA AAAAATAAAAACAATTTGAGGTGGTTTACCTTAACAGCAGATGACCAACCATATTCTTCTTTAA GTGAGCTATACAATTCGCATAATCGGTCAACATCATCAGTGGAATACTGACCATTCTCTGAGTA TAGACCAAGGCACTTTTGAACAGCTATGAAATACCTGATTAAAACCAGTGAAAATAAATTAATC CCTAGAGTATTAACAAGAAGGGGTACAATGTAAGTCAGAAGAGTGCTATAGACGCAAGTATCTA TAATATTTCCCCTGAATACAAGGGAATTCCAAAATTGAGTTGATATTAAGTCATAGAGGAAGAT TGTAGCAGCAAAGATGCATCAAACTTATCCTAACACTTAGCCTTACAGCGTCACTCCACCTAAA GGATGAGCCCAGTTGGCATGGATGGTTCCGCAAGTTTTATATGCAACTATCTAGTGGGACTAAG CCAACCAATAAGAGCAGGCACATGGATGCCTATTGTTGTGACCTTGAGTTTGCGAAACCATATA AGCACCTGTAAGGTACTTGCACTGAAAGTTTGGACTCTTAGATGGATGCTTTGCTGACATGGTA TACTAAGCACCTCCCTTCTTTGCCACTTCTTCCATTGTACAAGTCTTAGCAGACAGAAAATTGG TTCATATCGGGCCACATATTTCTGATACCATGTTGCATACCAGGTAAATTCTGCAAAACCAGAG GCTCTCATCCTCACTTATCTTAAAAGGGCAAGCCAAGTTGGTAAGCATGATTTTCCCATTGTTT ATATGGGACTATTGGGTTTAAACCCACCACCCACCACGTACCAACTAGAACTAAGAACCCTCCC ACAGGCTAAATTTGCACCATCATGTTACAGAAATATAAATGGTATAGCTCCCCTGTCCTCCTAT GAAGAGCATGTGATATACATATATCAAGCAAAGAGAGCACAAACACAAGAAATAACTTAAATCA ATTCCATGCAAAGTTTTGCAACATGAACATTAAATACGTTAAGGACTGAAGGGTCAGAATCAGT CATGATAACATATGATTTCTGCCTCATGTATAGTTCATGTGGTTGCAGACCAGATTGTTGTCAC GATTAACTACCAAATGCAAGTACTGATAAAATTGGTTGAATTAGCCAAATTGACCAACACTTAT TTATAAAATAGAGCTAGATTATCATATAACTCATAAACTGGGAGAGAGTATTTTACAGAAGATC CTAAAGCATGCATAATTACAAAATTAAAGATTTAAAAATAACAATAATCTAAAAATAAGGTATT AATTGGAATAAAAATGGAATGTAAACAGCATATTAGAATAAGTCCATGTTGAAATTCAAAACCC ATACACACTATTTTCAGAGTTTACCAGAAGACGCAAAGAAATTTAAGTGAGGAAAAAAAAAAAG CAGCACAGGTGCCTCACTTGTAGTTATCAGGATTCATGAAAAGCAGGGACCTATATGTTTTCTC AGCCTCCTCAAAGCGGCCAAGTTTCAACAAAATGCAGGCCATTTGTTCTTTGAACGATAGCTTG TCAACCTAGAAGAAAAAAATAATTATGTGCGCCCATCTTTCTGAGTAATATTTTTCCTCTTTAC ATGATTGAGAAAGATAAGACTTACAATTTTGCTCTCCTTCTTCTGCATCTCCTCAAGAGCTCTG TCCAGCATCCCACATTCCTCGAACAATGAAATCTGTGGAACAGCAATAACATTACATAACAAGT AAAGATGAAGTGAGTATTAAAATAACGCAAATTCTTTCCACTTTCTAGTTTCCAGAGCATGAAA AGAACTTAATACATAAATAAAAGTGATGGCATAAAATCAGAACATAAGTAAAGAATCAATTTCA TTCAGAAAGTTAGATTGTTTGAAGAAGAGATGGCCGGCAGCAAGTTTTCAACTAATATGAACCA GAGAGTGAATATAAATCATCATTCGAACACTTCGTATTTACAGACAGCATTCTGCAAAACCAGC ATCAAAATACAAAATACAACGCTACACAAATTACAGTATGACCAACGCATATAATCCAGACAGA TATCATATATGTCCTGATAATTCGTTGTTCATGAAAGTGTGAATGTGTATAAGTACAGCATTGC TACCGCAATCATATCCCAGAAATACAAGAGAATTTTGACAGGCACCTTATACAGAAGCATTTCA CTGTGTTCATATCGCTCATTCTCTGGGGGATAATCATCTTCCAGTGTCCCCTCATATGCCTCCA ATACTTCTATTGCCTTGGAAGAA

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.11102924

Conservation Information
Conserved circRNAs	NA
PMCS	0.11102924

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							24543535-24541229(+)
24544018-24541207(-)
						
						Potential amino acid sequence
						
							MKSYTEAFHCVHIAHSLGDNHLPVSPHMPPILLLPWKNFLGSILKS*(+)
MLLYKISLFEECGMLDRALEEMQKKESKIVDKLSFKEQMACILLKLGRFEEAEKTYRSLLFMNP
DNYKYFIAVQKCLGLYSENGQYSTDDVDRLCELYSSLKEEYGWSSAVKRIPLDFLEGEKFQEAA
DNYVRPLLTKGVPSLFSDLSPLYEQPGKANILEELFLKLERSIRTSGCFPGSSSKAIEVLEAYE
GTLEDDYPPENERYEHSEMLLYKISLFEECGMLDRALEEMQKKESKIVDKLSFKEQMACILLKL
GRFEEAEKTYRSLLFMNPDNYKYFIAVQKCLGLYSENGQYSTDDVDRLCELYSSLKEEYGWSSA
VKRIPLDFLEGEKFQEAADNYVRPLLTKGVPSLFSDLSPLYEQPGKANILEELFLKLERSIRTS
GCFPGSSSKAIEVLEAYEGTLEDDYPPENERYEHSEMLLYKISLFEECGMLDRALEEMQKKESK
IVDKLSFKEQMACILLKLGRFEEAEKTYRSLLFMNPDNYKYFIAVQKCLGLYSENGQYSTDDVD
RLCELYSSLKEEYGWSSAVKRIPLDFLEGEKFQEAADNYVRPLLTKGVPSLFSDLSPLYEQPGK
ANILEELFLKLERSIRTSGCFPGSSSKAIEVLEAYEGTLEDDYPPENERYEHSEMLLYKISLFE
ECGMLDRALEEMQKKESKIVDKLSFKEQMACILLKLGRFEEAEKTYRSLLFMNPDNYKYFIAVQ
KCLGLYSENGQYSTDDVDRLCELYSSLKEEYGWSSAVKRIPLDFLEGEKFQEAADNYVRPLLTK
GVPSLFSDLSPLYEQPGKANILEELFLKLERSIRTSGCFPG(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	24543535-24541229(+) 24544018-24541207(-)
Potential amino acid sequence	MKSYTEAFHCVHIAHSLGDNHLPVSPHMPPILLLPWKNFLGSILKS*(+) MLLYKISLFEECGMLDRALEEMQKKESKIVDKLSFKEQMACILLKLGRFEEAEKTYRSLLFMNP DNYKYFIAVQKCLGLYSENGQYSTDDVDRLCELYSSLKEEYGWSSAVKRIPLDFLEGEKFQEAA DNYVRPLLTKGVPSLFSDLSPLYEQPGKANILEELFLKLERSIRTSGCFPGSSSKAIEVLEAYE GTLEDDYPPENERYEHSEMLLYKISLFEECGMLDRALEEMQKKESKIVDKLSFKEQMACILLKL GRFEEAEKTYRSLLFMNPDNYKYFIAVQKCLGLYSENGQYSTDDVDRLCELYSSLKEEYGWSSA VKRIPLDFLEGEKFQEAADNYVRPLLTKGVPSLFSDLSPLYEQPGKANILEELFLKLERSIRTS GCFPGSSSKAIEVLEAYEGTLEDDYPPENERYEHSEMLLYKISLFEECGMLDRALEEMQKKESK IVDKLSFKEQMACILLKLGRFEEAEKTYRSLLFMNPDNYKYFIAVQKCLGLYSENGQYSTDDVD RLCELYSSLKEEYGWSSAVKRIPLDFLEGEKFQEAADNYVRPLLTKGVPSLFSDLSPLYEQPGK ANILEELFLKLERSIRTSGCFPGSSSKAIEVLEAYEGTLEDDYPPENERYEHSEMLLYKISLFE ECGMLDRALEEMQKKESKIVDKLSFKEQMACILLKLGRFEEAEKTYRSLLFMNPDNYKYFIAVQ KCLGLYSENGQYSTDDVDRLCELYSSLKEEYGWSSAVKRIPLDFLEGEKFQEAADNYVRPLLTK GVPSLFSDLSPLYEQPGKANILEELFLKLERSIRTSGCFPG(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

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

circRNA

Detail information of Os01g0617500_circ_g.7

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