Plant Circular RNA Database

Detail information of Os06g0308300_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os06g0308300_circ_g.1
					
						ID in PlantcircBase
						osa_circ_030659
					
						Alias
						Os_ciR10325
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr6: 11699184-11699751  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, PcircRNA_finder, find_circ
					
						Parent gene
						
							Os06g0308300						
					
						Parent gene annotation
						
							Similar to 65kD microtubule associated protein. (Os06t0308300-01
);Similar to microtubule-associated protein MAP65-1a. (Os06t0308
300-02);Similar to 65kD microtubule associated protein. (Os06t03
08300-03)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						Support reads
						2/53
					
						Tissues
						root/root, seed
					
						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
						Os06t0308300-02:2
Os06t0308300-03:2
Os06t0308300-01:2

General Information
CircRNA Name	Os06g0308300_circ_g.1
ID in PlantcircBase	osa_circ_030659
Alias	Os_ciR10325
Organism	Oryza sativa
Position	chr6: 11699184-11699751 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, PcircRNA_finder, find_circ
Parent gene	Os06g0308300
Parent gene annotation	Similar to 65kD microtubule associated protein. (Os06t0308300-01 );Similar to microtubule-associated protein MAP65-1a. (Os06t0308 300-02);Similar to 65kD microtubule associated protein. (Os06t03 08300-03)
Parent gene strand	-
Alternative splicing	NA
Support reads	2/53
Tissues	root/root, seed
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	Os06t0308300-02:2 Os06t0308300-03:2 Os06t0308300-01:2

			
						 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  
						
							CAAATTCCCGCACTCTTTCGTTTTTCTGCTTGTTCAACTTCTCGAGTGTTGGCGCTATAGCAGC
AAGTTGTTGCTTGATTGTCCCAGACGTCTTCTCAGGcttgcttagtcttgactttttgtcttca
ttaagtgtggctacagtcttgtcaagttttgacagtgtatcattgctaatgctcttgcagttgt
caccaata

						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: 474
Transcript exons: 11699184-11699399,11699494-11699751
CTTGCTTAGTCTTGACTTTTTGTCTTCATTAAGTGTGGCTACAGTCTTGTCAAGTTTTGACAGT
GTATCATTGCTAATGCTCTTGCAGTTGTCACCAATAGAGTCATCCAAACTGGGATGAACTTCAG
TCACTGTGCTAAGAAAATCCATCCCTAAGACAGTACAGAGATTATGTATCATGCTCACATAATC
AAGAACCTTCTCCAACCTATTGCTCTTCTCTTTTTCGAGCTCCTGTAGTTGTGAACGAAATTCT
TCAAGCCTCTCAAGTGTCAAATCATCCTCATTAACTTGTGGCGTTGCCACCTTCTCACCCACCT
CCGTAGTGCCAGCAATCTCACCACATATTTGATCAATTTGTGACTGAACATTAACAAATTCCCG
CACTCTTTCGTTTTTCTGCTTGTTCAACTTCTCGAGTGTTGGCGCTATAGCAGCAAGTTGTTGC
TTGATTGTCCCAGACGTCTTCTCAGG
						
						Genomic sequence
						
							CTTGCTTAGTCTTGACTTTTTGTCTTCATTAAGTGTGGCTACAGTCTTGTCAAGTTTTGACAGT
GTATCATTGCTAATGCTCTTGCAGTTGTCACCAATAGAGTCATCCAAACTGGGATGAACTTCAG
TCACTGTGCTAAGAAAATCCATCCCTAAGACAGTACAGAGATTATGTATCATGCTCACATAATC
AAGAACCTTCTCCAACCTATTGCTCTGCAAACCAATTCCCAAGGGAACCAAATCTTGTCAGCAA
TGGTCAGGCATCACAGCTAGCACCAAATGAAGAAATTATACAGGTTACATGTACCTTCTCTTTT
TCGAGCTCCTGTAGTTGTGAACGAAATTCTTCAAGCCTCTCAAGTGTCAAATCATCCTCATTAA
CTTGTGGCGTTGCCACCTTCTCACCCACCTCCGTAGTGCCAGCAATCTCACCACATATTTGATC
AATTTGTGACTGAACATTAACAAATTCCCGCACTCTTTCGTTTTTCTGCTTGTTCAACTTCTCG
AGTGTTGGCGCTATAGCAGCAAGTTGTTGCTTGATTGTCCCAGACGTCTTCTCAGG

Sequences
Splice junction sequence	CAAATTCCCGCACTCTTTCGTTTTTCTGCTTGTTCAACTTCTCGAGTGTTGGCGCTATAGCAGC AAGTTGTTGCTTGATTGTCCCAGACGTCTTCTCAGGcttgcttagtcttgactttttgtcttca ttaagtgtggctacagtcttgtcaagttttgacagtgtatcattgctaatgctcttgcagttgt caccaata
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: 474 Transcript exons: 11699184-11699399,11699494-11699751 CTTGCTTAGTCTTGACTTTTTGTCTTCATTAAGTGTGGCTACAGTCTTGTCAAGTTTTGACAGT GTATCATTGCTAATGCTCTTGCAGTTGTCACCAATAGAGTCATCCAAACTGGGATGAACTTCAG TCACTGTGCTAAGAAAATCCATCCCTAAGACAGTACAGAGATTATGTATCATGCTCACATAATC AAGAACCTTCTCCAACCTATTGCTCTTCTCTTTTTCGAGCTCCTGTAGTTGTGAACGAAATTCT TCAAGCCTCTCAAGTGTCAAATCATCCTCATTAACTTGTGGCGTTGCCACCTTCTCACCCACCT CCGTAGTGCCAGCAATCTCACCACATATTTGATCAATTTGTGACTGAACATTAACAAATTCCCG CACTCTTTCGTTTTTCTGCTTGTTCAACTTCTCGAGTGTTGGCGCTATAGCAGCAAGTTGTTGC TTGATTGTCCCAGACGTCTTCTCAGG
Genomic sequence	CTTGCTTAGTCTTGACTTTTTGTCTTCATTAAGTGTGGCTACAGTCTTGTCAAGTTTTGACAGT GTATCATTGCTAATGCTCTTGCAGTTGTCACCAATAGAGTCATCCAAACTGGGATGAACTTCAG TCACTGTGCTAAGAAAATCCATCCCTAAGACAGTACAGAGATTATGTATCATGCTCACATAATC AAGAACCTTCTCCAACCTATTGCTCTGCAAACCAATTCCCAAGGGAACCAAATCTTGTCAGCAA TGGTCAGGCATCACAGCTAGCACCAAATGAAGAAATTATACAGGTTACATGTACCTTCTCTTTT TCGAGCTCCTGTAGTTGTGAACGAAATTCTTCAAGCCTCTCAAGTGTCAAATCATCCTCATTAA CTTGTGGCGTTGCCACCTTCTCACCCACCTCCGTAGTGCCAGCAATCTCACCACATATTTGATC AATTTGTGACTGAACATTAACAAATTCCCGCACTCTTTCGTTTTTCTGCTTGTTCAACTTCTCG AGTGTTGGCGCTATAGCAGCAAGTTGTTGCTTGATTGTCCCAGACGTCTTCTCAGG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.337105619

Conservation Information
Conserved circRNAs	NA
PMCS	0.337105619

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							11699365-11699186(-)
						
						Potential amino acid sequence
						
							MIHNLCTVLGMDFLSTVTEVHPSLDDSIGDNCKSISNDTLSKLDKTVATLNEDKKSRLSKPEKT
SGTIKQQLAAIAPTLEKLNKQKNERVREFVNVQSQIDQICGEIAGTTEVGEKVATPQVNEDDLT
LERLEEFRSQLQELEKEKSNRLEKVLDYVSMIHNLCTVLGMDFLSTVTEVHPSLDDSIGDNCKS
ISNDTLSKLDKTVATLNEDKKSRLSKPEKTSGTIKQQLAAIAPTLEKLNKQKNERVREFVNVQS
QIDQICGEIAGTTEVGEKVATPQVNEDDLTLERLEEFRSQLQELEKEKSNRLEKVLDYVSMIHN
LCTVLGMDFLSTVTEVHPSLDDSIGDNCKSISNDTLSKLDKTVATLNEDKKSRLSKPEKTSGTI
KQQLAAIAPTLEKLNKQKNERVREFVNVQSQIDQICGEIAGTTEVGEKVATPQVNEDDLTLERL
EEFRSQLQELEKEKSNRLEKVLDYVSMIHNLCTVLGMDFLSTVTEVHPSLDDSIGDNCKSISND
TLSKLDKTVATLNEDKKSRLSK(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	11699365-11699186(-)
Potential amino acid sequence	MIHNLCTVLGMDFLSTVTEVHPSLDDSIGDNCKSISNDTLSKLDKTVATLNEDKKSRLSKPEKT SGTIKQQLAAIAPTLEKLNKQKNERVREFVNVQSQIDQICGEIAGTTEVGEKVATPQVNEDDLT LERLEEFRSQLQELEKEKSNRLEKVLDYVSMIHNLCTVLGMDFLSTVTEVHPSLDDSIGDNCKS ISNDTLSKLDKTVATLNEDKKSRLSKPEKTSGTIKQQLAAIAPTLEKLNKQKNERVREFVNVQS QIDQICGEIAGTTEVGEKVATPQVNEDDLTLERLEEFRSQLQELEKEKSNRLEKVLDYVSMIHN LCTVLGMDFLSTVTEVHPSLDDSIGDNCKSISNDTLSKLDKTVATLNEDKKSRLSKPEKTSGTI KQQLAAIAPTLEKLNKQKNERVREFVNVQSQIDQICGEIAGTTEVGEKVATPQVNEDDLTLERL EEFRSQLQELEKEKSNRLEKVLDYVSMIHNLCTVLGMDFLSTVTEVHPSLDDSIGDNCKSISND TLSKLDKTVATLNEDKKSRLSK(-)
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 Os06g0308300_circ_g.1

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