Plant Circular RNA Database

Detail information of Os01g0673500_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os01g0673500_circ_g.3
					
						ID in PlantcircBase
						osa_circ_003182
					
						Alias
						Os_ciR5995
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr1: 27661012-27663672  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os01g0673500						
					
						Parent gene annotation
						
							Similar to predicted protein. (Os01t0673500-01);Similar to Katan
in p60 ATPase-containing subunit A1 (EC 3.6.4.3) (Katanin p60 su
bunit A1) (p60 katanin). Splice isoform 2. (Os01t0673500-02);Sim
ilar to predicted protein. (Os01t0673500-03)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os01g0673500_circ_g.1 Os01g0673500_circ_g.2 Os01g0673500_circ_g.4 Os01g0673500_circ_g.5 						
					
						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
						Os01t0673500-03:3
Os01t0673500-01:4
Os01t0673500-02:4

General Information
CircRNA Name	Os01g0673500_circ_g.3
ID in PlantcircBase	osa_circ_003182
Alias	Os_ciR5995
Organism	Oryza sativa
Position	chr1: 27661012-27663672 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os01g0673500
Parent gene annotation	Similar to predicted protein. (Os01t0673500-01);Similar to Katan in p60 ATPase-containing subunit A1 (EC 3.6.4.3) (Katanin p60 su bunit A1) (p60 katanin). Splice isoform 2. (Os01t0673500-02);Sim ilar to predicted protein. (Os01t0673500-03)
Parent gene strand	-
Alternative splicing	Os01g0673500_circ_g.1 Os01g0673500_circ_g.2 Os01g0673500_circ_g.4 Os01g0673500_circ_g.5
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	Os01t0673500-03:3 Os01t0673500-01:4 Os01t0673500-02:4

			
						 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  
						
							AAAGTAATGCCATACCACGCCATTTACTGACAATTGATGAGGCTGAAATATTGAAGAAGGTTGT
TTTGCACTCAGTAGCCACAGCTTTTGCTAGCATTGTcatcctcaggcacttcttcttgccttcc
ttcaagaaccgacattaaccttctaaggggttgcattgccgcctccttgcacacaaggcgtata
tcagagcc

									
								

					

						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: 571
Transcript exons: 27661012-27661234,27661956-27662057,27662470-27662630,27
663588-27663672
CATCCTCAGGCACTTCTTCTTGCCTTCCTTCAAGAACCGACATTAACCTTCTAAGGGGTTGCAT
TGCCGCCTCCTTGCACACAAGGCGTATATCAGAGCCTGAATATCCTTCAGTTTTCTCCACAAGA
ACATCATATGGGATATTCATTGTGCCAGGAACAGATGGCAAGAGCTCTTCAAACATGGCATGTC
TAGCTTCTTGCTCTGGTAAGGGAACAAGAATACGTTTCTCCAAACGGCGCAACATTGCTGCATC
CAGTTCCCATGGCAAATTTGTGGCGGCTAGAACAAAAACGAGATCATCTGTCTTAGTTAACCCA
TCCATCTGTATTAATAGCTCAGTCTTCAATCGCCGACTGGCTTCATGTTCACTACGAGCTTCAC
CACGTTGGCTAATAATAGCATCAATCTCATCGAGAAAAATGGTGGATGGTGCATGATGCCTTGC
AAGCTCAAATAAGACTTTCACTAGTTTCTCCGAATCACCACGCCATTTACTGACAATTGATGAG
GCTGAAATATTGAAGAAGGTTGTTTTGCACTCAGTAGCCACAGCTTTTGCTAGCATTGT
						
					

						Genomic sequence
						
							CATCCTCAGGCACTTCTTCTTGCCTTCCTTCAAGAACCGACATTAACCTTCTAAGGGGTTGCAT
TGCCGCCTCCTTGCACACAAGGCGTATATCAGAGCCTGAATATCCTTCAGTTTTCTCCACAAGA
ACATCATATGGGATATTCATTGTGCCAGGAACAGATGGCAAGAGCTCTTCAAACATGGCATGTC
TAGCTTCTTGCTCTGGTAAGGGAACAAGAATCTAATTGCAAGTTAAGGATGGATTTCCCTTTTT
ATGTGGAAAAATCAAGTGTGGTCCTATATACAAACTCCAGTATCGCAATAAGAAAAGATACAAG
AATCGAGATTGAATTCTTTAACAGTTTTTAGTACAAACAATAACTTCAGTAAGAAGCCTATGAT
GTGTCAGTTACAACTACAAATAGATTTAAGGCAAGCATTGGAAATAGGCAACATTTACAACTAC
AAATAGATTTAAGGCAAGCATTGGAAATAGGCTACATAAATGTTCATCATCAAACATTCTCTTT
ACTACATAATAAGAGAATCACTTATTCTCAATCTGAAATTCAAATCAGTAGTTCCTCACATAAG
AAAATGATCTTTGGTATTGTTACTTCTGGTTAAACATATTTGAGATTTGAATTTTTTTTCATGG
TCTTCAAGGTGCGATTGTTACCATGATTTTATTAGAATAGGTTTATAAAATCTAATAAGTTTAT
GAGATGTTGGAAGTACTTTAAAACAAATCAAAGCATATCATATTTATGTTTTTGAACTAAGTTT
TTAAAGTTCATCGATAGTCAAGGTTTCAAAAGTTTAACCAGATTTTGTCCAAAACATCAAGCAT
TTGCGGACAAAACAAGGGAGTTTACCTAATAGCAAAACTGGCAATTACGGAGTAGTATTTAGGA
GCACTCGTGAACAAAGAAATTACAAGATGGTTTGAGAAAAAAGGATACACGTTTCTCCAAACGG
CGCAACATTGCTGCATCCAGTTCCCATGGCAAATTTGTGGCGGCTAGAACAAAAACGAGATCAT
CTGTCTTAGTTAACCCATCCATCTGCAGCAACAAATTATCAGAATTCATGACTGCTTTTATCAC
CATGTGAATGAAATCACACAAGTTCAGGATTATTATACATATCAATTTATGAAAGGTTTCATAT
ACTAACAGAATCCTGTATGTTGAGAACCACCAAGGGTCTTCCGGCTAGCTCCACAAGATGGTGG
GCTAGACGACCTGGGTTCGAAGCCTCACCCCTTCTAGTTATTTGATATTAGATCCTTCCCTAAT
ATTCGCGTCCTTTTTAACAGAATCCCATATGCTGAGATATATGATATCTAAAGAGTTTGTTCTT
TGTTAATTTTCCTCCATAGGGTTATGTTCACAATTTAGGGCTGAGAAACTCATACTACTTATGA
AGCAGTGAAAGTTTCAGCATAATCACTTTACAAAGCCTCAAGAATGCTACCTGTATTAATAGCT
CAGTCTTCAATCGCCGACTGGCTTCATGTTCACTACGAGCTTCACCACGTTGGCTAATAATAGC
ATCAATCTCATCGAGAAAAATGGTGGATGGTGCATGATGCCTTGCAAGCTCAAATAAGACTTTC
ACTAGTTTCTCCGAATCACCTGCACCGTTGTAACTATTAGGTAGGGAAAACTTACTAAAATATC
GATAGAAATGGAGCAAGGACAGAATATCATGTATGGTAAGGATGTGAGTTAGAAGTTATAAGTT
CGATCTAGTCAGGTACAGGTTCATCCATCCGTTATTAATAGCAAGAAGGAATTATATAGTTCCA
CATATCTGTTCTTCCAAATTGATGAATGAAAAGGATGAGGTGATTGTTCCACAAAGGTTAGTGC
TGTTGGATATACAATGTTCCACAAAATGTACAGGCGGAGTGAGGGTGGCAGAGGAGTATTAGGC
TAGTAGGCTCTGGTGCAAATAGGGAGCCAGTGGTCAGTGGGCAGTGGCCAACAATGGCTATGGA
AGCCCTACACCATTGGGTGCCATAACATGGTATGCAAGGGTGAAGGAGAAGATTTGATGGTTTC
ATTAAGTCCAAAAGAAATGTGGCATATGCTAGGATCCATAGAATACTGTCATGCACAACAGTGA
TTATTGATATTTTTCAAGCTGCTAGTACATGAGGCCAAAAGATAACTGCCTGTTAGGGGAATAT
AGAAAGAAGGAAATGAAAAAAAAAAAAAGAATTATGAATGTTTCAGTCCTATTGGTGGCGCTTA
AGTGAGTTTAAGGATACAGTTGAGTAGTATCAATGAATAGTTAACTGTGGACCTCTTTAGTGCT
GGAGAAACATGTATTAACTTTATAAAACTTGGAAGAGTAAATACTATCCAATGTAAATCTATAG
AAATTTGCTAATACGGATTGCTTTAAAAAATATATAAAGAGCAGATAGAAACACAAAAAAATAG
TGCATGCATGTATCACATATCTACATGATTAGTTGGTCATACAAGCAATACAACATGACAAGAA
GTAGAAACTACAACAACAATAGCATTAAAAGGGAAACAATGCAAATGCATCTCAGAACGCAAGC
AAAAGTAATGCCATACCACGCCATTTACTGACAATTGATGAGGCTGAAATATTGAAGAAGGTTG
TTTTGCACTCAGTAGCCACAGCTTTTGCTAGCATTGT
						
					

			
		

Sequences
Splice junction sequence	AAAGTAATGCCATACCACGCCATTTACTGACAATTGATGAGGCTGAAATATTGAAGAAGGTTGT TTTGCACTCAGTAGCCACAGCTTTTGCTAGCATTGTcatcctcaggcacttcttcttgccttcc ttcaagaaccgacattaaccttctaaggggttgcattgccgcctccttgcacacaaggcgtata tcagagcc
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: 571 Transcript exons: 27661012-27661234,27661956-27662057,27662470-27662630,27 663588-27663672 CATCCTCAGGCACTTCTTCTTGCCTTCCTTCAAGAACCGACATTAACCTTCTAAGGGGTTGCAT TGCCGCCTCCTTGCACACAAGGCGTATATCAGAGCCTGAATATCCTTCAGTTTTCTCCACAAGA ACATCATATGGGATATTCATTGTGCCAGGAACAGATGGCAAGAGCTCTTCAAACATGGCATGTC TAGCTTCTTGCTCTGGTAAGGGAACAAGAATACGTTTCTCCAAACGGCGCAACATTGCTGCATC CAGTTCCCATGGCAAATTTGTGGCGGCTAGAACAAAAACGAGATCATCTGTCTTAGTTAACCCA TCCATCTGTATTAATAGCTCAGTCTTCAATCGCCGACTGGCTTCATGTTCACTACGAGCTTCAC CACGTTGGCTAATAATAGCATCAATCTCATCGAGAAAAATGGTGGATGGTGCATGATGCCTTGC AAGCTCAAATAAGACTTTCACTAGTTTCTCCGAATCACCACGCCATTTACTGACAATTGATGAG GCTGAAATATTGAAGAAGGTTGTTTTGCACTCAGTAGCCACAGCTTTTGCTAGCATTGT
Genomic sequence	CATCCTCAGGCACTTCTTCTTGCCTTCCTTCAAGAACCGACATTAACCTTCTAAGGGGTTGCAT TGCCGCCTCCTTGCACACAAGGCGTATATCAGAGCCTGAATATCCTTCAGTTTTCTCCACAAGA ACATCATATGGGATATTCATTGTGCCAGGAACAGATGGCAAGAGCTCTTCAAACATGGCATGTC TAGCTTCTTGCTCTGGTAAGGGAACAAGAATCTAATTGCAAGTTAAGGATGGATTTCCCTTTTT ATGTGGAAAAATCAAGTGTGGTCCTATATACAAACTCCAGTATCGCAATAAGAAAAGATACAAG AATCGAGATTGAATTCTTTAACAGTTTTTAGTACAAACAATAACTTCAGTAAGAAGCCTATGAT GTGTCAGTTACAACTACAAATAGATTTAAGGCAAGCATTGGAAATAGGCAACATTTACAACTAC AAATAGATTTAAGGCAAGCATTGGAAATAGGCTACATAAATGTTCATCATCAAACATTCTCTTT ACTACATAATAAGAGAATCACTTATTCTCAATCTGAAATTCAAATCAGTAGTTCCTCACATAAG AAAATGATCTTTGGTATTGTTACTTCTGGTTAAACATATTTGAGATTTGAATTTTTTTTCATGG TCTTCAAGGTGCGATTGTTACCATGATTTTATTAGAATAGGTTTATAAAATCTAATAAGTTTAT GAGATGTTGGAAGTACTTTAAAACAAATCAAAGCATATCATATTTATGTTTTTGAACTAAGTTT TTAAAGTTCATCGATAGTCAAGGTTTCAAAAGTTTAACCAGATTTTGTCCAAAACATCAAGCAT TTGCGGACAAAACAAGGGAGTTTACCTAATAGCAAAACTGGCAATTACGGAGTAGTATTTAGGA GCACTCGTGAACAAAGAAATTACAAGATGGTTTGAGAAAAAAGGATACACGTTTCTCCAAACGG CGCAACATTGCTGCATCCAGTTCCCATGGCAAATTTGTGGCGGCTAGAACAAAAACGAGATCAT CTGTCTTAGTTAACCCATCCATCTGCAGCAACAAATTATCAGAATTCATGACTGCTTTTATCAC CATGTGAATGAAATCACACAAGTTCAGGATTATTATACATATCAATTTATGAAAGGTTTCATAT ACTAACAGAATCCTGTATGTTGAGAACCACCAAGGGTCTTCCGGCTAGCTCCACAAGATGGTGG GCTAGACGACCTGGGTTCGAAGCCTCACCCCTTCTAGTTATTTGATATTAGATCCTTCCCTAAT ATTCGCGTCCTTTTTAACAGAATCCCATATGCTGAGATATATGATATCTAAAGAGTTTGTTCTT TGTTAATTTTCCTCCATAGGGTTATGTTCACAATTTAGGGCTGAGAAACTCATACTACTTATGA AGCAGTGAAAGTTTCAGCATAATCACTTTACAAAGCCTCAAGAATGCTACCTGTATTAATAGCT CAGTCTTCAATCGCCGACTGGCTTCATGTTCACTACGAGCTTCACCACGTTGGCTAATAATAGC ATCAATCTCATCGAGAAAAATGGTGGATGGTGCATGATGCCTTGCAAGCTCAAATAAGACTTTC ACTAGTTTCTCCGAATCACCTGCACCGTTGTAACTATTAGGTAGGGAAAACTTACTAAAATATC GATAGAAATGGAGCAAGGACAGAATATCATGTATGGTAAGGATGTGAGTTAGAAGTTATAAGTT CGATCTAGTCAGGTACAGGTTCATCCATCCGTTATTAATAGCAAGAAGGAATTATATAGTTCCA CATATCTGTTCTTCCAAATTGATGAATGAAAAGGATGAGGTGATTGTTCCACAAAGGTTAGTGC TGTTGGATATACAATGTTCCACAAAATGTACAGGCGGAGTGAGGGTGGCAGAGGAGTATTAGGC TAGTAGGCTCTGGTGCAAATAGGGAGCCAGTGGTCAGTGGGCAGTGGCCAACAATGGCTATGGA AGCCCTACACCATTGGGTGCCATAACATGGTATGCAAGGGTGAAGGAGAAGATTTGATGGTTTC ATTAAGTCCAAAAGAAATGTGGCATATGCTAGGATCCATAGAATACTGTCATGCACAACAGTGA TTATTGATATTTTTCAAGCTGCTAGTACATGAGGCCAAAAGATAACTGCCTGTTAGGGGAATAT AGAAAGAAGGAAATGAAAAAAAAAAAAAGAATTATGAATGTTTCAGTCCTATTGGTGGCGCTTA AGTGAGTTTAAGGATACAGTTGAGTAGTATCAATGAATAGTTAACTGTGGACCTCTTTAGTGCT GGAGAAACATGTATTAACTTTATAAAACTTGGAAGAGTAAATACTATCCAATGTAAATCTATAG AAATTTGCTAATACGGATTGCTTTAAAAAATATATAAAGAGCAGATAGAAACACAAAAAAATAG TGCATGCATGTATCACATATCTACATGATTAGTTGGTCATACAAGCAATACAACATGACAAGAA GTAGAAACTACAACAACAATAGCATTAAAAGGGAAACAATGCAAATGCATCTCAGAACGCAAGC AAAAGTAATGCCATACCACGCCATTTACTGACAATTGATGAGGCTGAAATATTGAAGAAGGTTG TTTTGCACTCAGTAGCCACAGCTTTTGCTAGCATTGT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.327619664

Conservation Information
Conserved circRNAs	NA
PMCS	0.327619664

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							27663671-27663646(-)
27661016-27663646(-)
						
						Potential amino acid sequence
						
							MLAKAVATECKTTFFNISASSIVSKWRGDSEKLVKVLFELARHHAPSTIFLDEIDAIISQRGEA
RSEHEASRRLKTELLIQMDGLTKTDDLVFVLAATNLPWELDAAMLRRLEKRILVPLPEQEARHA
MFEELLPSVPGTMNIPYDVLVEKTEGYSGSDIRLVCKEAAMQPLRRLMSVLEGRQEEVPEDDNA
SKSCGY*(-)
MTMLAKAVATECKTTFFNISASSIVSKWRGDSEKLVKVLFELARHHAPSTIFLDEIDAIISQRG
EARSEHEASRRLKTELLIQMDGLTKTDDLVFVLAATNLPWELDAAMLRRLEKRILVPLPEQEAR
HAMFEELLPSVPGTMNIPYDVLVEKTEGYSGSDIRLVCKEAAMQPLRRLMSVLEGRQEEVPEDD
NASKSCGY*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	27663671-27663646(-) 27661016-27663646(-)
Potential amino acid sequence	MLAKAVATECKTTFFNISASSIVSKWRGDSEKLVKVLFELARHHAPSTIFLDEIDAIISQRGEA RSEHEASRRLKTELLIQMDGLTKTDDLVFVLAATNLPWELDAAMLRRLEKRILVPLPEQEARHA MFEELLPSVPGTMNIPYDVLVEKTEGYSGSDIRLVCKEAAMQPLRRLMSVLEGRQEEVPEDDNA SKSCGY(-) MTMLAKAVATECKTTFFNISASSIVSKWRGDSEKLVKVLFELARHHAPSTIFLDEIDAIISQRG EARSEHEASRRLKTELLIQMDGLTKTDDLVFVLAATNLPWELDAAMLRRLEKRILVPLPEQEAR HAMFEELLPSVPGTMNIPYDVLVEKTEGYSGSDIRLVCKEAAMQPLRRLMSVLEGRQEEVPEDD NASKSCGY(-)
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 Os01g0673500_circ_g.3

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