Plant Circular RNA Database

Detail information of Os01g0753500_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os01g0753500_circ_g.2
					
						ID in PlantcircBase
						osa_circ_003939
					
						Alias
						Os_ciR5103
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr1: 31620205-31621937  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os01g0753500						
					
						Parent gene annotation
						
							Transcriptional factor B3 family protein. (Os01t0753500-01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os01g0753500_circ_g.3 						
					
						Support reads
						3/3
					
						Tissues
						root/shoot, 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
						Os01t0753500-01:6

General Information
CircRNA Name	Os01g0753500_circ_g.2
ID in PlantcircBase	osa_circ_003939
Alias	Os_ciR5103
Organism	Oryza sativa
Position	chr1: 31620205-31621937 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os01g0753500
Parent gene annotation	Transcriptional factor B3 family protein. (Os01t0753500-01)
Parent gene strand	-
Alternative splicing	Os01g0753500_circ_g.3
Support reads	3/3
Tissues	root/shoot, 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	Os01t0753500-01:6

			
						 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  
						
							TGCAGAACATGTGCAGCATCCTGGACTTCCTTTCCTCATCACCATCCTCCATGTCATCCTCCCT
TTCGATTCCACCACCATGCAAGTTCCTCTCAAATACcagaaggcttctccactttgaaccaggc
catctgatggggtctacttcactaacaccggcaatcattccagaacgcctacaacacagatagt
aagaccca

									
								

					

						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: 717
Transcript exons: 31620205-31620280,31620357-31620473,31620594-31620758,31
620842-31620932,31621566-31621650,31621755-31621937
CAGAAGGCTTCTCCACTTTGAACCAGGCCATCTGATGGGGTCTACTTCACTAACACCGGCAATC
ATTCCAGAACGCCTCTCATTAACATCTTCACTCTCAAAATGAAACTTGAACCTCATTCCAATAC
AAACTGGATGGTTGAAGCTTTTCACGAACTTCCAATATGGAACAACGTACTCAGAAGCAGTAGC
CCTTGGGTTGTAACAAATGTGAAAAACACTTCCATGTTTCAAGGAATCAGCCACAGCCGACAGT
GTGCGCATCTTTGAACTTTCGCTACTAAAAGCTTTGAAAATCGCTTCATTTTTAAGCTGAGTAG
CTCTTCGAACACCCAATCTTAGCTCACCATCATCACCCCGGAGAAATAACACCGCGTCCCCTGA
GACCAGTTTCTTTTTATTGACAAAGGAGCTCCATCCAGTTGTTAAAAGATGCCTGCGAGGTTGA
CCTCTATAAATATGGCGGAACCTCCACTTTGCTCCATGCAAATCCTTGGCAACAAGCTCTTGAG
AAGGCCTTAGCTGTTTGTGGTCCAGAGGTGGAAAGCAATCCTCAGCAGCCCGACGAGGAACAGA
GAACCCTCCATGTGTGCTTGTATCAGAGGCCGTTAGTGTTTTGCAGAACATGTGCAGCATCCTG
GACTTCCTTTCCTCATCACCATCCTCCATGTCATCCTCCCTTTCGATTCCACCACCATGCAAGT
TCCTCTCAAATAC
						
					

						Genomic sequence
						
							CAGAAGGCTTCTCCACTTTGAACCAGGCCATCTGATGGGGTCTACTTCACTAACACCGGCAATC
ATTCCAGAACGCCTACAACACAGATAGTAAGACCCAAGAAAGTATTATGCAAAAACAAAAAAAG
ATAGTTCAACTGAAAAATGCAAACCTCTCATTAACATCTTCACTCTCAAAATGAAACTTGAACC
TCATTCCAATACAAACTGGATGGTTGAAGCTTTTCACGAACTTCCAATATGGAACAACGTACTC
AGAAGCAGTAGCCCTACAAAGTCCAATGATTACAATATGTGAATGGATATATAGTCCAACTGCC
CCAGAGAAAATGACATTGTATTGAGTTGGACCACACAAAATGAAACACTATATGTTTTATTCAG
CAGACCTTGGGTTGTAACAAATGTGAAAAACACTTCCATGTTTCAAGGAATCAGCCACAGCCGA
CAGTGTGCGCATCTTTGAACTTTCGCTACTAAAAGCTTTGAAAATCGCTTCATTTTTAAGCTGA
GTAGCTCTTCGAACACCCAATCTTAGCTCACCATCATCACCCCTGCAAACGCTTAAAATGCTTC
GTTAGAAAATATAGACAAGAAAGCATTAGCTTTATGGTTAACACCTGGATCAAGTGATTACCGG
AGAAATAACACCGCGTCCCCTGAGACCAGTTTCTTTTTATTGACAAAGGAGCTCCATCCAGTTG
TTAAAAGATGCCTGCGAGGTTGACCTGGAATGAAAAGAATGTTAAAAATTCATAATGTCATACT
TTGCTCCATCACATGCTATAACTACAAGATAACTTGTGCATTTCCCTTGTAATCAAAATGGAGA
TATTGGCTTGGACAACAATAAGATTGGAGAGCATCCTCTATCCACTGTTTCAAGGACACTACTA
TCTGAGCAAAATTGTACAGTTTTATTAACAGAAGTAATTTTCACTGCAGAGATAACACACCATA
TATAACAAAGTGATGGAAGTCACAAAAGAATAACATAAATTGTATCAGAAGATGAACTAGGAAG
GAAATAATTTGCATCCTAGGGAATGGCAAAGACGACTGAACGCGCAGTTCAGACAGGCAAAACT
ACTGACCACTTAGAATGTCAAACATTCAAAGAGTTGAAAAGCTACACCTGCCATATATTTTGTA
GCATTGACTAAAATACTTCCTGACCTCTTTCAAAGCTAAAACAGTCACACATAATTTAGCAATG
CTCTGTATATGCCCGATCATCAAACATGAGTATGACGTACAAGTTTCCGATACAAAGGTATCAA
ATCAAACATTTACTAGCAATTAAATAAATAGATTGTGTAACAAGGGCATTGCATATCCCTTATC
AAGTACTCGGATGTCACCTCTATAAATATGGCGGAACCTCCACTTTGCTCCATGCAAATCCTTG
GCAACAAGCTCTTGAGAAGGCCTTAGCTGTTTGTGGTCCTATTAAGGCACGAAAGAAAACAAAC
TTCGTTAGAGTTACATCACAAGACAAGCAGTCACTTGAAGAGTCAATAGGAAACAAATCAAACT
TCTAATCTCATCACCAGAGGTGGAAAGCAATCCTCAGCAGCCCGACGAGGAACAGAGAACCCTC
CATGTGTGCTTGTATCAGAGGCCGTTAGTGTTTTGCAGAACATGTGCAGCATCCTGGACTTCCT
TTCCTCATCACCATCCTCCATGTCATCCTCCCTTTCGATTCCACCACCATGCAAGTTCCTCTCA
AATAC
						
					

			
		

Sequences
Splice junction sequence	TGCAGAACATGTGCAGCATCCTGGACTTCCTTTCCTCATCACCATCCTCCATGTCATCCTCCCT TTCGATTCCACCACCATGCAAGTTCCTCTCAAATACcagaaggcttctccactttgaaccaggc catctgatggggtctacttcactaacaccggcaatcattccagaacgcctacaacacagatagt aagaccca
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: 717 Transcript exons: 31620205-31620280,31620357-31620473,31620594-31620758,31 620842-31620932,31621566-31621650,31621755-31621937 CAGAAGGCTTCTCCACTTTGAACCAGGCCATCTGATGGGGTCTACTTCACTAACACCGGCAATC ATTCCAGAACGCCTCTCATTAACATCTTCACTCTCAAAATGAAACTTGAACCTCATTCCAATAC AAACTGGATGGTTGAAGCTTTTCACGAACTTCCAATATGGAACAACGTACTCAGAAGCAGTAGC CCTTGGGTTGTAACAAATGTGAAAAACACTTCCATGTTTCAAGGAATCAGCCACAGCCGACAGT GTGCGCATCTTTGAACTTTCGCTACTAAAAGCTTTGAAAATCGCTTCATTTTTAAGCTGAGTAG CTCTTCGAACACCCAATCTTAGCTCACCATCATCACCCCGGAGAAATAACACCGCGTCCCCTGA GACCAGTTTCTTTTTATTGACAAAGGAGCTCCATCCAGTTGTTAAAAGATGCCTGCGAGGTTGA CCTCTATAAATATGGCGGAACCTCCACTTTGCTCCATGCAAATCCTTGGCAACAAGCTCTTGAG AAGGCCTTAGCTGTTTGTGGTCCAGAGGTGGAAAGCAATCCTCAGCAGCCCGACGAGGAACAGA GAACCCTCCATGTGTGCTTGTATCAGAGGCCGTTAGTGTTTTGCAGAACATGTGCAGCATCCTG GACTTCCTTTCCTCATCACCATCCTCCATGTCATCCTCCCTTTCGATTCCACCACCATGCAAGT TCCTCTCAAATAC
Genomic sequence	CAGAAGGCTTCTCCACTTTGAACCAGGCCATCTGATGGGGTCTACTTCACTAACACCGGCAATC ATTCCAGAACGCCTACAACACAGATAGTAAGACCCAAGAAAGTATTATGCAAAAACAAAAAAAG ATAGTTCAACTGAAAAATGCAAACCTCTCATTAACATCTTCACTCTCAAAATGAAACTTGAACC TCATTCCAATACAAACTGGATGGTTGAAGCTTTTCACGAACTTCCAATATGGAACAACGTACTC AGAAGCAGTAGCCCTACAAAGTCCAATGATTACAATATGTGAATGGATATATAGTCCAACTGCC CCAGAGAAAATGACATTGTATTGAGTTGGACCACACAAAATGAAACACTATATGTTTTATTCAG CAGACCTTGGGTTGTAACAAATGTGAAAAACACTTCCATGTTTCAAGGAATCAGCCACAGCCGA CAGTGTGCGCATCTTTGAACTTTCGCTACTAAAAGCTTTGAAAATCGCTTCATTTTTAAGCTGA GTAGCTCTTCGAACACCCAATCTTAGCTCACCATCATCACCCCTGCAAACGCTTAAAATGCTTC GTTAGAAAATATAGACAAGAAAGCATTAGCTTTATGGTTAACACCTGGATCAAGTGATTACCGG AGAAATAACACCGCGTCCCCTGAGACCAGTTTCTTTTTATTGACAAAGGAGCTCCATCCAGTTG TTAAAAGATGCCTGCGAGGTTGACCTGGAATGAAAAGAATGTTAAAAATTCATAATGTCATACT TTGCTCCATCACATGCTATAACTACAAGATAACTTGTGCATTTCCCTTGTAATCAAAATGGAGA TATTGGCTTGGACAACAATAAGATTGGAGAGCATCCTCTATCCACTGTTTCAAGGACACTACTA TCTGAGCAAAATTGTACAGTTTTATTAACAGAAGTAATTTTCACTGCAGAGATAACACACCATA TATAACAAAGTGATGGAAGTCACAAAAGAATAACATAAATTGTATCAGAAGATGAACTAGGAAG GAAATAATTTGCATCCTAGGGAATGGCAAAGACGACTGAACGCGCAGTTCAGACAGGCAAAACT ACTGACCACTTAGAATGTCAAACATTCAAAGAGTTGAAAAGCTACACCTGCCATATATTTTGTA GCATTGACTAAAATACTTCCTGACCTCTTTCAAAGCTAAAACAGTCACACATAATTTAGCAATG CTCTGTATATGCCCGATCATCAAACATGAGTATGACGTACAAGTTTCCGATACAAAGGTATCAA ATCAAACATTTACTAGCAATTAAATAAATAGATTGTGTAACAAGGGCATTGCATATCCCTTATC AAGTACTCGGATGTCACCTCTATAAATATGGCGGAACCTCCACTTTGCTCCATGCAAATCCTTG GCAACAAGCTCTTGAGAAGGCCTTAGCTGTTTGTGGTCCTATTAAGGCACGAAAGAAAACAAAC TTCGTTAGAGTTACATCACAAGACAAGCAGTCACTTGAAGAGTCAATAGGAAACAAATCAAACT TCTAATCTCATCACCAGAGGTGGAAAGCAATCCTCAGCAGCCCGACGAGGAACAGAGAACCCTC CATGTGTGCTTGTATCAGAGGCCGTTAGTGTTTTGCAGAACATGTGCAGCATCCTGGACTTCCT TTCCTCATCACCATCCTCCATGTCATCCTCCCTTTCGATTCCACCACCATGCAAGTTCCTCTCA AATAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_010732 						
					
						PMCS
						0.239710281

Conservation Information
Conserved circRNAs	osi_circ_010732
PMCS	0.239710281

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							31621847-31620383(+)
31621891-31620207(-)
						
						Potential amino acid sequence
						
							MCSILDFLSSSPSSMSSSLSIPPPCKFLSNTRRLLHFEPGHLMGSTSLTPAIIPERLSLTSSLS
K*(+)
MEDGDEERKSRMLHMFCKTLTASDTSTHGGFSVPRRAAEDCFPPLDHKQLRPSQELVAKDLHGA
KWRFRHIYRGQPRRHLLTTGWSSFVNKKKLVSGDAVLFLRGDDGELRLGVRRATQLKNEAIFKA
FSSESSKMRTLSAVADSLKHGSVFHICYNPRATASEYVVPYWKFVKSFNHPVCIGMRFKFHFES
EDVNERRSGMIAGVSEVDPIRWPGSKWRSLLVFERNLHGGGIEREDDMEDGDEERKSRMLHMFC
KTLTASDTSTHGGFSVPRRAAEDCFPPLDHKQLRPSQELVAKDLHGAKWRFRHIYRGQPRRHLL
TTGWSSFVNKKKLVSGDAVLFLRGDDGELRLGVRRATQLKNEAIFKAFSSESSKMRTLSAVADS
LKHGSVFHICYNPRATASEYVVPYWKFVKSFNHPVCIGMRFKFHFESEDVNERRSGMIAGVSEV
DPIRWPGSKWRSLLVFERNLHGGGIEREDDMEDGDEERKSRMLHMFCKTLTASDTSTHGGFSVP
RRAAEDCFPPLDHKQLRPSQELVAKDLHGAKWRFRHIYRGQPRRHLLTTGWSSFVNKKKLVSGD
AVLFLRGDDGELRLGVRRATQLKNEAIFKAFSSESSKMRTLSAVADSLKHGSVFHICYNPRATA
SEYVVPYWKFVKSFNHPVCIGMRFKFHFESEDVNERRSGMIAGVSEVDPIRWPGSKWRSLLVFE
RNLHGGGIEREDDMEDGDEERKSRMLHMFCKTLTASDTSTHGGFSVPRRAAEDCFPPLDHKQLR
PSQELVAKDLHGAKWRFRHIYRGQPRRHLLTTGWSSFVNKKKLVSGDAVLFLRGDDGELRLGVR
RATQLKNEAIFKAFSSESSKMRTLSAVADSLKHGSVFHICYNPRATASEYVVPYWKFVKSFNHP
VCIGMRFKFHFESEDVNERRSGMIAGVSEVDPIRWPGSKWRSLL(-)
						
						Sponge-miRNAs
						
							osa-miR1862f 						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	31621847-31620383(+) 31621891-31620207(-)
Potential amino acid sequence	MCSILDFLSSSPSSMSSSLSIPPPCKFLSNTRRLLHFEPGHLMGSTSLTPAIIPERLSLTSSLS K*(+) MEDGDEERKSRMLHMFCKTLTASDTSTHGGFSVPRRAAEDCFPPLDHKQLRPSQELVAKDLHGA KWRFRHIYRGQPRRHLLTTGWSSFVNKKKLVSGDAVLFLRGDDGELRLGVRRATQLKNEAIFKA FSSESSKMRTLSAVADSLKHGSVFHICYNPRATASEYVVPYWKFVKSFNHPVCIGMRFKFHFES EDVNERRSGMIAGVSEVDPIRWPGSKWRSLLVFERNLHGGGIEREDDMEDGDEERKSRMLHMFC KTLTASDTSTHGGFSVPRRAAEDCFPPLDHKQLRPSQELVAKDLHGAKWRFRHIYRGQPRRHLL TTGWSSFVNKKKLVSGDAVLFLRGDDGELRLGVRRATQLKNEAIFKAFSSESSKMRTLSAVADS LKHGSVFHICYNPRATASEYVVPYWKFVKSFNHPVCIGMRFKFHFESEDVNERRSGMIAGVSEV DPIRWPGSKWRSLLVFERNLHGGGIEREDDMEDGDEERKSRMLHMFCKTLTASDTSTHGGFSVP RRAAEDCFPPLDHKQLRPSQELVAKDLHGAKWRFRHIYRGQPRRHLLTTGWSSFVNKKKLVSGD AVLFLRGDDGELRLGVRRATQLKNEAIFKAFSSESSKMRTLSAVADSLKHGSVFHICYNPRATA SEYVVPYWKFVKSFNHPVCIGMRFKFHFESEDVNERRSGMIAGVSEVDPIRWPGSKWRSLLVFE RNLHGGGIEREDDMEDGDEERKSRMLHMFCKTLTASDTSTHGGFSVPRRAAEDCFPPLDHKQLR PSQELVAKDLHGAKWRFRHIYRGQPRRHLLTTGWSSFVNKKKLVSGDAVLFLRGDDGELRLGVR RATQLKNEAIFKAFSSESSKMRTLSAVADSLKHGSVFHICYNPRATASEYVVPYWKFVKSFNHP VCIGMRFKFHFESEDVNERRSGMIAGVSEVDPIRWPGSKWRSLL(-)
Sponge-miRNAs	osa-miR1862f
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

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

circRNA

Detail information of Os01g0753500_circ_g.2

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