Plant Circular RNA Database

Detail information of Solyc07g009320.2_circ_g.2

			
						 General Information
					
						CircRNA Name
						Solyc07g009320.2_circ_g.2
					
						ID in PlantcircBase
						sly_circ_002224
					
						Alias
						NA
					
						Organism
						
							Solanum lycopersicum						
					
						Position
						
							chr7: 4367529-4369821  JBrowse»						
					
						Reference genome
						
							SL2.50.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						Segemehl, CIRI
					
						Parent gene
						
							Solyc07g009320.2						
					
						Parent gene annotation
						
							Mitochondrial outer membrane import complex protein METAXIN
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Solyc07g009320.2_circ_g.1 						
					
						Support reads
						NA
					
						Tissues
						fruit
					
						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
						Solyc07g009320.2.1:4

General Information
CircRNA Name	Solyc07g009320.2_circ_g.2
ID in PlantcircBase	sly_circ_002224
Alias	NA
Organism	Solanum lycopersicum
Position	chr7: 4367529-4369821 JBrowse»
Reference genome	SL2.50.38
Type	e-circRNA
Identification method	Segemehl, CIRI
Parent gene	Solyc07g009320.2
Parent gene annotation	Mitochondrial outer membrane import complex protein METAXIN
Parent gene strand	-
Alternative splicing	Solyc07g009320.2_circ_g.1
Support reads	NA
Tissues	fruit
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	Solyc07g009320.2.1:4

			
						 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  
						
							TCCAAATCAACAAAACCATCTTCGCTTAAACTGCGGATAACTCCACCCTTCTCATTGTTGTAGG
CTACGTATGTACCAGATTCGACATAAGGTATTTGATtccattgtgaaggacgccttggcacaga
tgaagaaggatcactctgggaatgtgtaccggaagatgatgatccgctagaatctaccagttca
cttttata

									
								

					

						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: 636
Transcript exons: 4367529-4367691,4368316-4368376,4368460-4368536,4369487-
4369821
TCCATTGTGAAGGACGCCTTGGCACAGATGAAGAAGGATCACTCTGGGAATGTGTACCGGAAGA
TGATGATCCGCTAGAATCTACCAGTTCACTTTTATACTTCTCAGTGTATCTTACAAGATTATCA
TGTTCCAAGAGCTTGCTTCGGAGCACTGAAGTTTCAGGCAATGCATACAGTGTAAAAAGTGCAT
GACCGAGGAAAACTGCATCCAAACTTGTCGGCCTGTTTTCGAAGAAATAAGCCTGCTCCCCTAA
TCTAGTTGATAAAGCACTAAAGGCATCATTGGCATTCCTGTAAATCTCTTCCTCTCTTCTTTCA
GCATTTTCTTTTGTAATACCAAGAATTTGTTTCACAACATGAACTTGCTTTAAGTACAAGATTT
TTCCAAGTGGCCACGGGAGATCTGAATAGTAAATCTTGTGTGCGGAAGTTCCGTCAGAACCCAC
CCAGAGTTCATAAATAGTGGCATCTGCAAGCCATGAATCAACCATAGCCTTTGCTGATATCCAT
TCAGGTATACCACGGACTTGAGAGTCCAAATCAACAAAACCATCTTCGCTTAAACTGCGGATAA
CTCCACCCTTCTCATTGTTGTAGGCTACGTATGTACCAGATTCGACATAAGGTATTTGAT
						
					

						Genomic sequence
						
							TCCATTGTGAAGGACGCCTTGGCACAGATGAAGAAGGATCACTCTGGGAATGTGTACCGGAAGA
TGATGATCCGCTAGAATCTACCAGTTCACTTTTATACTTCTCAGTGTATCTTACAAGATTATCA
TGTTCCAAGAGCTTGCTTCGGAGCACTGAAGTTTCCTATCAGCAGAAATAAAAAAATAAAGGTA
AAAAGTAGAAGTGCCAGAGTGACAATCACATCTATTTTGCACTGCTCTGATAAAACTAAAGGGT
TGTGTAAGATACAAACAATCAACTGCCTGCTGTGCTTTCCAACCAGTCCCAGATTAAAGAAGTC
AACTTCTGACATATTCCAAATACTTTTAAACATCTTTAACTATTTCAAATTTTTGCATAGCCAT
CTACTTGTGCATATTTCATGTTTGTTTCAAACAAAACCACTATCATTCAAATGATCTTTGAAAC
AGCCAAACAGCACCACTTTCTTAATCAAGCAGTTTTAGTCTCAGGAAATATTATTCCCAATGAT
TCCAAAATGAACGTTATTCTAGTGTCAGTTGACCAGTGCTCCTTCTTCATCTCAATAACTTGTT
CCCTTCTTACACAATAATGTAGACAGGCACAAGATTGTTAAAGTAGTTGTTTCACATGAGAGGA
AACCAATTGTTATCTCTACCTAGTAACTATAAGTTGTAACTATTATTATTAAAACAGTTACTTC
CAAATTTACCATATAATTAGAGTACAAGTCTGAACAAAATCTAAGCACGTAAAATTGGTTAAAT
AAAGCCAAAGCGTACTCACAGGCAATGCATACAGTGTAAAAAGTGCATGACCGAGGAAAACTGC
ATCCAAACTTGTCGGCCTGTTAGATAACTTCAGAGATTAGTAAATAATGATGCAAAGAAAATGA
TAAATTTGCTTAGTTATGTTTTTGGATGAGGTAACCTGTTTTCGAAGAAATAAGCCTGCTCCCC
TAATCTAGTTGATAAAGCACTAAAGGCATCATTGGCATTCCTGTAAATCTGTCCAGCAAAAGGT
TTTGATTAACCCCATAATGAACAATATGTGAAATTATAGCTGCAGGAAAGATCACAAATGAAGC
AAAAAGGGGATCTCATTCAACTGTCTGGATTCTTCCCACACCCACTGTTCAGGGAAGAGTGAAG
CGGAAAAAATCGATAAGACCCCGCTTCACGCTTCAAGTGACGAAGCGCCCACATACTCATTCTT
GTCTGTGAAGCGTAGAAGGCTCGCAACGCTTCGCTTCATCGCTAAGCGCTCGCTTTCCTACGCA
CTGCCCCACAGCAATGCAGAGACTGCATAGTTTCTACAACACTTCGACCTCAAACTAGCTTGAG
TGGGCTTTATGATTTCTAATACTCCCTCCGTTTCAATTTTATTATCCTATTTGACTTAGCACGG
AGCTTATGAAAGTGAAGAAGACTTCTGAGTCTAATGGTCTTAAATTGAAGGTATGTAGAATGTA
GCAAAATGTCATTTAATCTTGTGGTCTTAAACATGTCGTGTGGAAAGTTGAAACTAAAGAGTTG
CCAAAAAAGGAAAGAGACATTCTTTAATAAATGGACTAAAAAGGAAAGTAGGACAAACAAATTG
AAATTGACACAGTATCCATTATACTCCATAGTCCATTCAGGCCTATTTCATTCTCATATCCAAT
ATATTTGTTTTTTTGCGACTATTTTAGGATTTCTACAAGATAAATAGTTTCCTACTGCAGAAAA
ATCCATAAATTTGATTACTCTCTTCGAGAATATAATTGTAGCTAACAGTTAATTTATAGCTAAG
TTGTAAGGTTGAATGAGCACTAGACCCTTCCCTTCCCCTTCTCATGAACCTTAGAATACACTTA
CAGATACAAATTTAGACAAAATCTGTTCTGGGAGATTTGCTCTCATACTGTGAGTGCAGAAAAA
TAGAGGAAAAAAAACATGTACCAATAGAACTATATTACCTCTTCCTCTCTTCTTTCAGCATTTT
CTTTTGTAATACCAAGAATTTGTTTCACAACATGAACTTGCTTTAAGTACAAGATTTTTCCAAG
TGGCCACGGGAGATCTGAATAGTAAATCTTGTGTGCGGAAGTTCCGTCAGAACCCACCCAGAGT
TCATAAATAGTGGCATCTGCAAGCCATGAATCAACCATAGCCTTTGCTGATATCCATTCAGGTA
TACCACGGACTTGAGAGTCCAAATCAACAAAACCATCTTCGCTTAAACTGCGGATAACTCCACC
CTTCTCATTGTTGTAGGCTACGTATGTACCAGATTCGACATAAGGTATTTGAT
						
					

			
		

Sequences
Splice junction sequence	TCCAAATCAACAAAACCATCTTCGCTTAAACTGCGGATAACTCCACCCTTCTCATTGTTGTAGG CTACGTATGTACCAGATTCGACATAAGGTATTTGATtccattgtgaaggacgccttggcacaga tgaagaaggatcactctgggaatgtgtaccggaagatgatgatccgctagaatctaccagttca cttttata
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: 636 Transcript exons: 4367529-4367691,4368316-4368376,4368460-4368536,4369487- 4369821 TCCATTGTGAAGGACGCCTTGGCACAGATGAAGAAGGATCACTCTGGGAATGTGTACCGGAAGA TGATGATCCGCTAGAATCTACCAGTTCACTTTTATACTTCTCAGTGTATCTTACAAGATTATCA TGTTCCAAGAGCTTGCTTCGGAGCACTGAAGTTTCAGGCAATGCATACAGTGTAAAAAGTGCAT GACCGAGGAAAACTGCATCCAAACTTGTCGGCCTGTTTTCGAAGAAATAAGCCTGCTCCCCTAA TCTAGTTGATAAAGCACTAAAGGCATCATTGGCATTCCTGTAAATCTCTTCCTCTCTTCTTTCA GCATTTTCTTTTGTAATACCAAGAATTTGTTTCACAACATGAACTTGCTTTAAGTACAAGATTT TTCCAAGTGGCCACGGGAGATCTGAATAGTAAATCTTGTGTGCGGAAGTTCCGTCAGAACCCAC CCAGAGTTCATAAATAGTGGCATCTGCAAGCCATGAATCAACCATAGCCTTTGCTGATATCCAT TCAGGTATACCACGGACTTGAGAGTCCAAATCAACAAAACCATCTTCGCTTAAACTGCGGATAA CTCCACCCTTCTCATTGTTGTAGGCTACGTATGTACCAGATTCGACATAAGGTATTTGAT
Genomic sequence	TCCATTGTGAAGGACGCCTTGGCACAGATGAAGAAGGATCACTCTGGGAATGTGTACCGGAAGA TGATGATCCGCTAGAATCTACCAGTTCACTTTTATACTTCTCAGTGTATCTTACAAGATTATCA TGTTCCAAGAGCTTGCTTCGGAGCACTGAAGTTTCCTATCAGCAGAAATAAAAAAATAAAGGTA AAAAGTAGAAGTGCCAGAGTGACAATCACATCTATTTTGCACTGCTCTGATAAAACTAAAGGGT TGTGTAAGATACAAACAATCAACTGCCTGCTGTGCTTTCCAACCAGTCCCAGATTAAAGAAGTC AACTTCTGACATATTCCAAATACTTTTAAACATCTTTAACTATTTCAAATTTTTGCATAGCCAT CTACTTGTGCATATTTCATGTTTGTTTCAAACAAAACCACTATCATTCAAATGATCTTTGAAAC AGCCAAACAGCACCACTTTCTTAATCAAGCAGTTTTAGTCTCAGGAAATATTATTCCCAATGAT TCCAAAATGAACGTTATTCTAGTGTCAGTTGACCAGTGCTCCTTCTTCATCTCAATAACTTGTT CCCTTCTTACACAATAATGTAGACAGGCACAAGATTGTTAAAGTAGTTGTTTCACATGAGAGGA AACCAATTGTTATCTCTACCTAGTAACTATAAGTTGTAACTATTATTATTAAAACAGTTACTTC CAAATTTACCATATAATTAGAGTACAAGTCTGAACAAAATCTAAGCACGTAAAATTGGTTAAAT AAAGCCAAAGCGTACTCACAGGCAATGCATACAGTGTAAAAAGTGCATGACCGAGGAAAACTGC ATCCAAACTTGTCGGCCTGTTAGATAACTTCAGAGATTAGTAAATAATGATGCAAAGAAAATGA TAAATTTGCTTAGTTATGTTTTTGGATGAGGTAACCTGTTTTCGAAGAAATAAGCCTGCTCCCC TAATCTAGTTGATAAAGCACTAAAGGCATCATTGGCATTCCTGTAAATCTGTCCAGCAAAAGGT TTTGATTAACCCCATAATGAACAATATGTGAAATTATAGCTGCAGGAAAGATCACAAATGAAGC AAAAAGGGGATCTCATTCAACTGTCTGGATTCTTCCCACACCCACTGTTCAGGGAAGAGTGAAG CGGAAAAAATCGATAAGACCCCGCTTCACGCTTCAAGTGACGAAGCGCCCACATACTCATTCTT GTCTGTGAAGCGTAGAAGGCTCGCAACGCTTCGCTTCATCGCTAAGCGCTCGCTTTCCTACGCA CTGCCCCACAGCAATGCAGAGACTGCATAGTTTCTACAACACTTCGACCTCAAACTAGCTTGAG TGGGCTTTATGATTTCTAATACTCCCTCCGTTTCAATTTTATTATCCTATTTGACTTAGCACGG AGCTTATGAAAGTGAAGAAGACTTCTGAGTCTAATGGTCTTAAATTGAAGGTATGTAGAATGTA GCAAAATGTCATTTAATCTTGTGGTCTTAAACATGTCGTGTGGAAAGTTGAAACTAAAGAGTTG CCAAAAAAGGAAAGAGACATTCTTTAATAAATGGACTAAAAAGGAAAGTAGGACAAACAAATTG AAATTGACACAGTATCCATTATACTCCATAGTCCATTCAGGCCTATTTCATTCTCATATCCAAT ATATTTGTTTTTTTGCGACTATTTTAGGATTTCTACAAGATAAATAGTTTCCTACTGCAGAAAA ATCCATAAATTTGATTACTCTCTTCGAGAATATAATTGTAGCTAACAGTTAATTTATAGCTAAG TTGTAAGGTTGAATGAGCACTAGACCCTTCCCTTCCCCTTCTCATGAACCTTAGAATACACTTA CAGATACAAATTTAGACAAAATCTGTTCTGGGAGATTTGCTCTCATACTGTGAGTGCAGAAAAA TAGAGGAAAAAAAACATGTACCAATAGAACTATATTACCTCTTCCTCTCTTCTTTCAGCATTTT CTTTTGTAATACCAAGAATTTGTTTCACAACATGAACTTGCTTTAAGTACAAGATTTTTCCAAG TGGCCACGGGAGATCTGAATAGTAAATCTTGTGTGCGGAAGTTCCGTCAGAACCCACCCAGAGT TCATAAATAGTGGCATCTGCAAGCCATGAATCAACCATAGCCTTTGCTGATATCCATTCAGGTA TACCACGGACTTGAGAGTCCAAATCAACAAAACCATCTTCGCTTAAACTGCGGATAACTCCACC CTTCTCATTGTTGTAGGCTACGTATGTACCAGATTCGACATAAGGTATTTGAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.506091247

Conservation Information
Conserved circRNAs	NA
PMCS	0.506091247

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							4369793-4367603(+)
4369680-4367531(-)
						
						Potential amino acid sequence
						
							MYQIRHKVFDSIVKDALAQMKKDHSGNVYRKMMIR*(+)
MVDSWLADATIYELWVGSDGTSAHKIYYSDLPWPLGKILYLKQVHVVKQILGITKENAERREEE
IYRNANDAFSALSTRLGEQAYFFENRPTSLDAVFLGHALFTLYALPETSVLRSKLLEHDNLVRY
TEKYKSELVDSSGSSSSGTHSQSDPSSSVPRRPSQWNQIPYVESGTYVAYNNEKGGVIRSLSED
GFVDLDSQVRGIPEWISAKAMVDSWLADATIYELWVGSDGTSAHKIYYSDLPWPLGKILYLKQV
HVVKQILGITKENAERREEEIYRNANDAFSALSTRLGEQAYFFENRPTSLDAVFLGHALFTLYA
LPETSVLRSKLLEHDNLVRYTEKYKSELVDSSGSSSSGTHSQSDPSSSVPRRPSQWNQIPYVES
GTYVAYNNEKGGVIRSLSEDGFVDLDSQVRGIPEWISAKAMVDSWLADATIYELWVGSDGTSAH
KIYYSDLPWPLGKILYLKQVHVVKQILGITKENAERREEEIYRNANDAFSALSTRLGEQAYFFE
NRPTSLDAVFLGHALFTLYALPETSVLRSKLLEHDNLVRYTEKYKSELVDSSGSSSSGTHSQSD
PSSSVPRRPSQWNQIPYVESGTYVAYNNEKGGVIRSLSEDGFVDLDSQVRGIPEWISAKAMVDS
WLADATIYELWVGSDGTSAHKIYYSDLPWPLGKILYLKQVHVVKQILGITKENAERREEEIYRN
ANDAFSALSTRLGEQAYFFENRPTSLDAVFLGHALFTLYALPETSVLRSKLLEHDNLVRYTEKY
KSELVDSSGSSSSGTHSQSDPSSSVPRRPSQW(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	4369793-4367603(+) 4369680-4367531(-)
Potential amino acid sequence	MYQIRHKVFDSIVKDALAQMKKDHSGNVYRKMMIR*(+) MVDSWLADATIYELWVGSDGTSAHKIYYSDLPWPLGKILYLKQVHVVKQILGITKENAERREEE IYRNANDAFSALSTRLGEQAYFFENRPTSLDAVFLGHALFTLYALPETSVLRSKLLEHDNLVRY TEKYKSELVDSSGSSSSGTHSQSDPSSSVPRRPSQWNQIPYVESGTYVAYNNEKGGVIRSLSED GFVDLDSQVRGIPEWISAKAMVDSWLADATIYELWVGSDGTSAHKIYYSDLPWPLGKILYLKQV HVVKQILGITKENAERREEEIYRNANDAFSALSTRLGEQAYFFENRPTSLDAVFLGHALFTLYA LPETSVLRSKLLEHDNLVRYTEKYKSELVDSSGSSSSGTHSQSDPSSSVPRRPSQWNQIPYVES GTYVAYNNEKGGVIRSLSEDGFVDLDSQVRGIPEWISAKAMVDSWLADATIYELWVGSDGTSAH KIYYSDLPWPLGKILYLKQVHVVKQILGITKENAERREEEIYRNANDAFSALSTRLGEQAYFFE NRPTSLDAVFLGHALFTLYALPETSVLRSKLLEHDNLVRYTEKYKSELVDSSGSSSSGTHSQSD PSSSVPRRPSQWNQIPYVESGTYVAYNNEKGGVIRSLSEDGFVDLDSQVRGIPEWISAKAMVDS WLADATIYELWVGSDGTSAHKIYYSDLPWPLGKILYLKQVHVVKQILGITKENAERREEEIYRN ANDAFSALSTRLGEQAYFFENRPTSLDAVFLGHALFTLYALPETSVLRSKLLEHDNLVRYTEKY KSELVDSSGSSSSGTHSQSDPSSSVPRRPSQW(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Tan et al., 2017

circRNA

Detail information of Solyc07g009320.2_circ_g.2

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