Plant Circular RNA Database

Detail information of Os01g0231900_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os01g0231900_circ_g.1
					
						ID in PlantcircBase
						osa_circ_000949
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr1: 7288862-7291602  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os01g0231900						
					
						Parent gene annotation
						
							K Homology, type 1, subgroup domain containing protein. (Os01t02
31900-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os01g0231900_circ_g.2 Os01g0231900_circ_g.3 Os01g0231900_circ_g.4 Os01g0231900_circ_g.5 Os01g0231900_circ_g.6 						
					
						Support reads
						1
					
						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  
						
							GT-AG							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
						Os01t0231900-01:6

General Information
CircRNA Name	Os01g0231900_circ_g.1
ID in PlantcircBase	osa_circ_000949
Alias	NA
Organism	Oryza sativa
Position	chr1: 7288862-7291602 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os01g0231900
Parent gene annotation	K Homology, type 1, subgroup domain containing protein. (Os01t02 31900-01)
Parent gene strand	+
Alternative splicing	Os01g0231900_circ_g.2 Os01g0231900_circ_g.3 Os01g0231900_circ_g.4 Os01g0231900_circ_g.5 Os01g0231900_circ_g.6
Support reads	1
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	GT-AG 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	Os01t0231900-01:6

			
						 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  
						
							CATGAACAGAAGCAAGAAAGGAGCCCTAGTGTTTCAATAAAGATGCAAGCCCATGAGGAGTCTG
TCAGAGTTAAAATGGATATTAAGGGCTCCCAACCAGggatctgttaatcaaaatagtattcact
cacttgtaatgaaaggtgcacaaggagcctcaaataattcggcaaaacacaagaaaagaaagtc
tgctgtgc

									
								

					

						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: 814
Transcript exons: 7288862-7289003,7289215-7289426,7289544-7289581,7289699-
7289778,7289874-7289941,7291329-7291602
GGATCTGTTAATCAAAATAGTATTCACTCACTTGTAATGAAAGGTGCACAAGGAGCCTCAAATA
ATTCGGCAAAACACAAGAAAAGAAAGTCTGCTGTGCAGAGATGGAGGCCAATCTCCACAGAAGC
CGCTGCTCCAAAAGCTGACCTTAATGAGATGTCAGGTCCTGTAAGCAAACAAGTGGAAGAGAAT
TCAGCCTCAGATGGAACAACTAATGTTGTTATTGAAGTTTCCACCTACAACGCATCCTTGCCAG
AAAATAAATTAGCCACAGAAGATACTATGGAGGATGCTAGCTTCAATAAGGACATAGATAGGTC
CAATCTATCTGAAAAGTGTTCCTCTTCTGTTCAGGTAGATGCTCCTCTGATGCGCTTTGTGAAA
GGAAAAGGTGGAACCATGCAGAAGCAGATTGAAGATGAAACTGGGGTCAAAATTATATTTCCAT
CTTCTAAGGAGGAAACATGTGTTGTTCTTGAAGCTAAAACTACTGAAGATATTAGAAAGGCTTC
AGAGAAAATTGCAAAGGTTCTTGAAGAGGCCGTGAAAAGTCCAATACTAGATTACTCTCACTTC
ATTTCGCTTCCATTGGCTATCCACCCAAGCCTTGTTGAGAAGCTGAACCACTTCCAGTGCTCAA
TCCTTGGGACTTCTTCTAATGTAGATAGTGATAAGGGTGAGGACCTAAGTGAAGGTTCTATGGA
TGAAATTGACCATGAACAGAAGCAAGAAAGGAGCCCTAGTGTTTCAATAAAGATGCAAGCCCAT
GAGGAGTCTGTCAGAGTTAAAATGGATATTAAGGGCTCCCAACCAG
						
					

						Genomic sequence
						
							GGATCTGTTAATCAAAATAGTATTCACTCACTTGTAATGAAAGGTGCACAAGGAGCCTCAAATA
ATTCGGCAAAACACAAGAAAAGAAAGTCTGCTGTGCAGAGATGGAGGCCAATCTCCACAGAAGC
CGCTGCTCCAAAAGGTAAGCCCCATTTGCTACTTGCTACTGCTAATACCTTGACTCAAGATCAT
AGTGCATTCAAACCTGGATATGCCCTAGTCATGATTGGACGCTGCTAATCTATGATGCTGTAAA
GATAATATCCATCTATCTCTAAATTTCCTTTCCTTAACTTGTTTGTGTATAGCATTGGGTGGCA
CTTCTGAATCATCCTATATTCCACATGATGCAGCTGACCTTAATGAGATGTCAGGTCCTGTAAG
CAAACAAGTGGAAGAGAATTCAGCCTCAGATGGAACAACTAATGTTGTTATTGAAGTTTCCACC
TACAACGCATCCTTGCCAGAAAATAAATTAGCCACAGAAGATACTATGGAGGATGCTAGCTTCA
ATAAGGACATAGATAGGTCCAATCTATCTGAAAAGTGTTCCTCTTCTGTTCAGGTATGCTCGGT
GGATATGTATGACAATTAATGTATCTTTTCCCTGTAAAAAGCTCAATGTATGAGTGATATTTAC
TTGTATTCTTTTCAAATATTCATGAATTCTGTTCTTTTCTAGGTAGATGCTCCTCTGATGCGCT
TTGTGAAAGGAAAAGGGTATTGGTCTCTTGAACCTGTTTCAGATATGCATTATCCTCAACTATC
CTCAGTTGAGGATAATGCTGGCCTGTCTCTCTCTGTGACTGAGAATCAATCGTATTCTTTGGCA
TGCAGTGGAACCATGCAGAAGCAGATTGAAGATGAAACTGGGGTCAAAATTATATTTCCATCTT
CTAAGGAGGAAACATGTGTTGGTAAAGATATACTGTTTATTTTTCAAATATGCTTGATGAAATA
AGCTGTTGGTAACTTTGGAAGCTAATGTTTGTGCTATATTGATTATTTTCAGTTCTTGAAGCTA
AAACTACTGAAGATATTAGAAAGGCTTCAGAGAAAATTGCAAAGGTTCTTGAAGAGGTACACGT
GATGCACTTTTTTTAAGATAAAGGAAGCTTTATTGATCTTAAACAATTACATCAAGACAATACA
ATTACTCTAAGACCAGTCCCAGCCTCTGCATGATTAAGATGCACACGACTTACGATTATTACAA
AAGAAAAGCGGCACAACAACAAATATCATGCCGCAGCGAACTACAAACACAAGCGATCTTCATA
CTTGCACGCATGTGGTGCACTGCTGCAATGGCTTATTATTTCCTGATACTCTGTGCATGTATCT
ATATTAGGCGTGGGCAGTAAAATCCCGAAGACTGAAAGCCGAACCGACCCGAGCCGAACCGAAC
CGAAGTGTCGGGTTTTTCAGGCTTCGGTTTATCCTTCGGTTTTTATTCTGCATTTGTTCGGTGT
ATGGTTTTTTCTGCGGTTTCCAATCCTCACGAACCAAACAACCCGAGAAAACCGAAACCACACG
TTCACATCATATCCCAGCAACCCAGCCTGGTAACATGAAAGGCCCAACATCTCCTAAACAAGGC
ACAGAGCCCATTAGTTTAACACTACTCGTATCTTCTCAAGCGGTCAAGCCTATTCATCGACATC
TCGACATCGATCTTTGCACGCGCATGGCTGGATTGGATGGCTACCTTAACGATGCTGCCGCTGC
CACTGCATGCGTGGACGATTGCCTCGGGCAGCTGCATAGCTGCCACATGCACACATCACTCATA
GCTGGCAGTTTGCTCAGATTGCAAGTTTTATGACTCCTACCATGTGCGAGGGCAGAAAGCAACT
TCTCCCCTCTCGATTTTTATGAACCATCTAGCGATTCATTTGATTATCGTGTGCTTCGGAATTC
ATGGAAGATGTTCTCCCGGTTTGTTCGGTGAAACCGAACAACCAAACCAAACAAACTCGGTTTG
TTCGGCTCGGTTTTTTACCTTTTCAATAGATACTTCGGTTAGCATATCTGCAAAACCGAACTTC
TAACAAACCGAATAAACCGAGGAAACCAAACGCCCACCCCTAATCTATATTACTATAGCATAAT
AGTTTGTGGTGCTTATTACACTAACATTCTTATTCATTTCCTCCTGATCATTTAATGAAATATA
CAAGCTATGATAGTTATGAGTGTCAAAGTTTAAAGGCCTTACTATGTTAACAATAATATATCAA
AGCACAAAAATTGATGCAGGATACCTCTTATATTTCTTGCAGTAGCACTAGACTAGTCCAAGTT
AAAGTTGTCAAAAGGTGTAAAGTTGTGTCTCCCATCACCAGTGAGCTACTCACAAATATAATCT
ACTGCCACCTGATTTGATAAAGTCATGTTTGAAATCCTATTTATGTCAGCTAATCATGGTTATC
ACCCTGGACGGCTGAGCTCCTCCTTTTTATTTCAGGCCGTGAAAAGTCCAATACTAGATTACTC
TCACTTCATTTCGCTTCCATTGGCTATCCACCCAAGCCTTGTTGAGAAGCTGAACCACTTCCAG
TGCTCAATCCTTGGGACTTCTTCTAATGTAGATAGTGATAAGGGTGAGGACCTAAGTGAAGGTT
CTATGGATGAAATTGACCATGAACAGAAGCAAGAAAGGAGCCCTAGTGTTTCAATAAAGATGCA
AGCCCATGAGGAGTCTGTCAGAGTTAAAATGGATATTAAGGGCTCCCAACCAG
						
					

			
		

Sequences
Splice junction sequence	CATGAACAGAAGCAAGAAAGGAGCCCTAGTGTTTCAATAAAGATGCAAGCCCATGAGGAGTCTG TCAGAGTTAAAATGGATATTAAGGGCTCCCAACCAGggatctgttaatcaaaatagtattcact cacttgtaatgaaaggtgcacaaggagcctcaaataattcggcaaaacacaagaaaagaaagtc tgctgtgc
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: 814 Transcript exons: 7288862-7289003,7289215-7289426,7289544-7289581,7289699- 7289778,7289874-7289941,7291329-7291602 GGATCTGTTAATCAAAATAGTATTCACTCACTTGTAATGAAAGGTGCACAAGGAGCCTCAAATA ATTCGGCAAAACACAAGAAAAGAAAGTCTGCTGTGCAGAGATGGAGGCCAATCTCCACAGAAGC CGCTGCTCCAAAAGCTGACCTTAATGAGATGTCAGGTCCTGTAAGCAAACAAGTGGAAGAGAAT TCAGCCTCAGATGGAACAACTAATGTTGTTATTGAAGTTTCCACCTACAACGCATCCTTGCCAG AAAATAAATTAGCCACAGAAGATACTATGGAGGATGCTAGCTTCAATAAGGACATAGATAGGTC CAATCTATCTGAAAAGTGTTCCTCTTCTGTTCAGGTAGATGCTCCTCTGATGCGCTTTGTGAAA GGAAAAGGTGGAACCATGCAGAAGCAGATTGAAGATGAAACTGGGGTCAAAATTATATTTCCAT CTTCTAAGGAGGAAACATGTGTTGTTCTTGAAGCTAAAACTACTGAAGATATTAGAAAGGCTTC AGAGAAAATTGCAAAGGTTCTTGAAGAGGCCGTGAAAAGTCCAATACTAGATTACTCTCACTTC ATTTCGCTTCCATTGGCTATCCACCCAAGCCTTGTTGAGAAGCTGAACCACTTCCAGTGCTCAA TCCTTGGGACTTCTTCTAATGTAGATAGTGATAAGGGTGAGGACCTAAGTGAAGGTTCTATGGA TGAAATTGACCATGAACAGAAGCAAGAAAGGAGCCCTAGTGTTTCAATAAAGATGCAAGCCCAT GAGGAGTCTGTCAGAGTTAAAATGGATATTAAGGGCTCCCAACCAG
Genomic sequence	GGATCTGTTAATCAAAATAGTATTCACTCACTTGTAATGAAAGGTGCACAAGGAGCCTCAAATA ATTCGGCAAAACACAAGAAAAGAAAGTCTGCTGTGCAGAGATGGAGGCCAATCTCCACAGAAGC CGCTGCTCCAAAAGGTAAGCCCCATTTGCTACTTGCTACTGCTAATACCTTGACTCAAGATCAT AGTGCATTCAAACCTGGATATGCCCTAGTCATGATTGGACGCTGCTAATCTATGATGCTGTAAA GATAATATCCATCTATCTCTAAATTTCCTTTCCTTAACTTGTTTGTGTATAGCATTGGGTGGCA CTTCTGAATCATCCTATATTCCACATGATGCAGCTGACCTTAATGAGATGTCAGGTCCTGTAAG CAAACAAGTGGAAGAGAATTCAGCCTCAGATGGAACAACTAATGTTGTTATTGAAGTTTCCACC TACAACGCATCCTTGCCAGAAAATAAATTAGCCACAGAAGATACTATGGAGGATGCTAGCTTCA ATAAGGACATAGATAGGTCCAATCTATCTGAAAAGTGTTCCTCTTCTGTTCAGGTATGCTCGGT GGATATGTATGACAATTAATGTATCTTTTCCCTGTAAAAAGCTCAATGTATGAGTGATATTTAC TTGTATTCTTTTCAAATATTCATGAATTCTGTTCTTTTCTAGGTAGATGCTCCTCTGATGCGCT TTGTGAAAGGAAAAGGGTATTGGTCTCTTGAACCTGTTTCAGATATGCATTATCCTCAACTATC CTCAGTTGAGGATAATGCTGGCCTGTCTCTCTCTGTGACTGAGAATCAATCGTATTCTTTGGCA TGCAGTGGAACCATGCAGAAGCAGATTGAAGATGAAACTGGGGTCAAAATTATATTTCCATCTT CTAAGGAGGAAACATGTGTTGGTAAAGATATACTGTTTATTTTTCAAATATGCTTGATGAAATA AGCTGTTGGTAACTTTGGAAGCTAATGTTTGTGCTATATTGATTATTTTCAGTTCTTGAAGCTA AAACTACTGAAGATATTAGAAAGGCTTCAGAGAAAATTGCAAAGGTTCTTGAAGAGGTACACGT GATGCACTTTTTTTAAGATAAAGGAAGCTTTATTGATCTTAAACAATTACATCAAGACAATACA ATTACTCTAAGACCAGTCCCAGCCTCTGCATGATTAAGATGCACACGACTTACGATTATTACAA AAGAAAAGCGGCACAACAACAAATATCATGCCGCAGCGAACTACAAACACAAGCGATCTTCATA CTTGCACGCATGTGGTGCACTGCTGCAATGGCTTATTATTTCCTGATACTCTGTGCATGTATCT ATATTAGGCGTGGGCAGTAAAATCCCGAAGACTGAAAGCCGAACCGACCCGAGCCGAACCGAAC CGAAGTGTCGGGTTTTTCAGGCTTCGGTTTATCCTTCGGTTTTTATTCTGCATTTGTTCGGTGT ATGGTTTTTTCTGCGGTTTCCAATCCTCACGAACCAAACAACCCGAGAAAACCGAAACCACACG TTCACATCATATCCCAGCAACCCAGCCTGGTAACATGAAAGGCCCAACATCTCCTAAACAAGGC ACAGAGCCCATTAGTTTAACACTACTCGTATCTTCTCAAGCGGTCAAGCCTATTCATCGACATC TCGACATCGATCTTTGCACGCGCATGGCTGGATTGGATGGCTACCTTAACGATGCTGCCGCTGC CACTGCATGCGTGGACGATTGCCTCGGGCAGCTGCATAGCTGCCACATGCACACATCACTCATA GCTGGCAGTTTGCTCAGATTGCAAGTTTTATGACTCCTACCATGTGCGAGGGCAGAAAGCAACT TCTCCCCTCTCGATTTTTATGAACCATCTAGCGATTCATTTGATTATCGTGTGCTTCGGAATTC ATGGAAGATGTTCTCCCGGTTTGTTCGGTGAAACCGAACAACCAAACCAAACAAACTCGGTTTG TTCGGCTCGGTTTTTTACCTTTTCAATAGATACTTCGGTTAGCATATCTGCAAAACCGAACTTC TAACAAACCGAATAAACCGAGGAAACCAAACGCCCACCCCTAATCTATATTACTATAGCATAAT AGTTTGTGGTGCTTATTACACTAACATTCTTATTCATTTCCTCCTGATCATTTAATGAAATATA CAAGCTATGATAGTTATGAGTGTCAAAGTTTAAAGGCCTTACTATGTTAACAATAATATATCAA AGCACAAAAATTGATGCAGGATACCTCTTATATTTCTTGCAGTAGCACTAGACTAGTCCAAGTT AAAGTTGTCAAAAGGTGTAAAGTTGTGTCTCCCATCACCAGTGAGCTACTCACAAATATAATCT ACTGCCACCTGATTTGATAAAGTCATGTTTGAAATCCTATTTATGTCAGCTAATCATGGTTATC ACCCTGGACGGCTGAGCTCCTCCTTTTTATTTCAGGCCGTGAAAAGTCCAATACTAGATTACTC TCACTTCATTTCGCTTCCATTGGCTATCCACCCAAGCCTTGTTGAGAAGCTGAACCACTTCCAG TGCTCAATCCTTGGGACTTCTTCTAATGTAGATAGTGATAAGGGTGAGGACCTAAGTGAAGGTT CTATGGATGAAATTGACCATGAACAGAAGCAAGAAAGGAGCCCTAGTGTTTCAATAAAGATGCA AGCCCATGAGGAGTCTGTCAGAGTTAAAATGGATATTAAGGGCTCCCAACCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.201279223

Conservation Information
Conserved circRNAs	NA
PMCS	0.201279223

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							7288899-7288869(+)
7291556-7288869(+)
						
						Potential amino acid sequence
						
							MKGAQGASNNSAKHKKRKSAVQRWRPISTEAAAPKADLNEMSGPVSKQVEENSASDGTTNVVIE
VSTYNASLPENKLATEDTMEDASFNKDIDRSNLSEKCSSSVQVDAPLMRFVKGKGGTMQKQIED
ETGVKIIFPSSKEETCVVLEAKTTEDIRKASEKIAKVLEEAVKSPILDYSHFISLPLAIHPSLV
EKLNHFQCSILGTSSNVDSDKGEDLSEGSMDEIDHEQKQERSPSVSIKMQAHEESVRVKMDIKG
SQPGIC*(+)
MRSLSELKWILRAPNQGSVNQNSIHSLVMKGAQGASNNSAKHKKRKSAVQRWRPISTEAAAPKA
DLNEMSGPVSKQVEENSASDGTTNVVIEVSTYNASLPENKLATEDTMEDASFNKDIDRSNLSEK
CSSSVQVDAPLMRFVKGKGGTMQKQIEDETGVKIIFPSSKEETCVVLEAKTTEDIRKASEKIAK
VLEEAVKSPILDYSHFISLPLAIHPSLVEKLNHFQCSILGTSSNVDSDKGEDLSEGSMDEIDHE
QKQERSPSVSIKMQAHEESVRVKMDIKGSQPGIC*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	7288899-7288869(+) 7291556-7288869(+)
Potential amino acid sequence	MKGAQGASNNSAKHKKRKSAVQRWRPISTEAAAPKADLNEMSGPVSKQVEENSASDGTTNVVIE VSTYNASLPENKLATEDTMEDASFNKDIDRSNLSEKCSSSVQVDAPLMRFVKGKGGTMQKQIED ETGVKIIFPSSKEETCVVLEAKTTEDIRKASEKIAKVLEEAVKSPILDYSHFISLPLAIHPSLV EKLNHFQCSILGTSSNVDSDKGEDLSEGSMDEIDHEQKQERSPSVSIKMQAHEESVRVKMDIKG SQPGIC(+) MRSLSELKWILRAPNQGSVNQNSIHSLVMKGAQGASNNSAKHKKRKSAVQRWRPISTEAAAPKA DLNEMSGPVSKQVEENSASDGTTNVVIEVSTYNASLPENKLATEDTMEDASFNKDIDRSNLSEK CSSSVQVDAPLMRFVKGKGGTMQKQIEDETGVKIIFPSSKEETCVVLEAKTTEDIRKASEKIAK VLEEAVKSPILDYSHFISLPLAIHPSLVEKLNHFQCSILGTSSNVDSDKGEDLSEGSMDEIDHE QKQERSPSVSIKMQAHEESVRVKMDIKGSQPGIC(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os01g0231900_circ_g.1

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