Plant Circular RNA Database

Detail information of Os03g0815200_circ_g.4

			
						 General Information
					
						CircRNA Name
						Os03g0815200_circ_g.4
					
						ID in PlantcircBase
						osa_circ_022427
					
						Alias
						Os_ciR8956
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr3: 34170043-34171665  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Os03g0815200						
					
						Parent gene annotation
						
							Similar to Methylenetetrahydrofolate reductase (EC 1.5.1.20). (O
s03t0815200-01);Similar to Methylenetetrahydrofolate reductase. 
(Os03t0815200-02);Similar to Methylenetetrahydrofolate reductase
. (Os03t0815200-03);Similar to Methylenetetrahydrofolate reducta
se (Fragment). (Os03t0815200-04)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os03g0815200_circ_g.2 Os03g0815200_circ_g.3 Os03g0815200_circ_g.5 Os03g0815200_circ_g.6 Os03g0815200_circ_g.7 Os03g0815200_circ_g.8 						
					
						Support reads
						2
					
						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  
						
							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
						Os03t0815200-02:2
Os03t0815200-03:1
Os03t0815200-01:7

General Information
CircRNA Name	Os03g0815200_circ_g.4
ID in PlantcircBase	osa_circ_022427
Alias	Os_ciR8956
Organism	Oryza sativa
Position	chr3: 34170043-34171665 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	find_circ
Parent gene	Os03g0815200
Parent gene annotation	Similar to Methylenetetrahydrofolate reductase (EC 1.5.1.20). (O s03t0815200-01);Similar to Methylenetetrahydrofolate reductase. (Os03t0815200-02);Similar to Methylenetetrahydrofolate reductase . (Os03t0815200-03);Similar to Methylenetetrahydrofolate reducta se (Fragment). (Os03t0815200-04)
Parent gene strand	-
Alternative splicing	Os03g0815200_circ_g.2 Os03g0815200_circ_g.3 Os03g0815200_circ_g.5 Os03g0815200_circ_g.6 Os03g0815200_circ_g.7 Os03g0815200_circ_g.8
Support reads	2
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	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	Os03t0815200-02:2 Os03t0815200-03:1 Os03t0815200-01:7

			
						 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  
						
							CATTTTGAATCCCATTAGACTTTATTGTTGTTAAGGCATCATCAATCTTCTCAACTGGCATATT
GGTGCATGTCAGGTGCATCATTGTTTCCACACACACctggtagtcagtaagtgctccatacgat
gggttccgggaatcaccccaccgcccatgtgggtattgatcccaaccaagggtccttgaaatat
agctcttt

									
								

					

						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: 888
Transcript exons: 34170043-34170154,34170245-34170345,34170415-34170588,34
170727-34170900,34171097-34171179,34171266-34171326,3417
1483-34171665
CTGGTAGTCAGTAAGTGCTCCATACGATGGGTTCCGGGAATCACCCCACCGCCCATGTGGGTAT
TGATCCCAACCAAGGGTCCTTGAAATATAGCTCTTTGGTCTGTTAGCCCAGAATATAGGGCGGA
CATCCTCCTTGACACGGAAAACATTTGTTGGGGGCCTCCAAGGCAATGACCTTGAGATCTTGGA
CTCCTCAATTAATCCAAGGTTCATCAATATTCCTAGAGCAGACTTCTCCATGTTTAGCGTGTAA
AGGTGCAAGGTCTTGATTCCAGTAGCTAAAATTTTCTTGCACATTTCAGTACCAAGGTGGATTC
CATATGCTTTGACCGCCTCCTCGTTATCTTTAATAGGTTCCAGTGCAGCAGTGATCTCAGCTGG
TATCTTAGTTTTGCAGAACCCTGTCATGCGCAGGAAACCTTTGTAGTTATTTATAGGCATTATG
CCAGGAACAATGGGGCAAGTTATGCCAATTTGGCGGCAGTCATTCACAAACTTGAGAAAGATAT
CAGTGTCATAGAAAAGCTGTGTAATGATAAGGTCAGCACCAGCATCAACCTTTTGCTTCAAATA
AGCAAGATCATTGCTGTATGCTTCTGGTGTAGCCCCTTCCGTACTTTGTATTGCATCCGGGTGG
GCCTCTGGATAACCAGCAACAGTAATACCAAAATAATCACCATACTTGGCTCTAATGTGTTGTA
CCAAATCAAGAGCACAAGCGAATCCACCAGCAACTTGAACAAATTTGTCCTGACCATGTGGAGG
ATCACCCCTAAGAGCCAGAACATTTTGAATCCCATTAGACTTTATTGTTGTTAAGGCATCATCA
ATCTTCTCAACTGGCATATTGGTGCATGTCAGGTGCATCATTGTTTCCACACACAC
						
					

						Genomic sequence
						
							CTGGTAGTCAGTAAGTGCTCCATACGATGGGTTCCGGGAATCACCCCACCGCCCATGTGGGTAT
TGATCCCAACCAAGGGTCCTTGAAATATAGCTCTTTGGTCTGTTAGCCCTGCTCAGTTATCATC
ATTCACCAGATTGAATGAGTGTTTATAACAATAAGATTCAATTACCTTGACAAATATTTTTTTT
AAACAACTACCAGAATATAGGGCGGACATCCTCCTTGACACGGAAAACATTTGTTGGGGGCCTC
CAAGGCAATGACCTTGAGATCTTGGACTCCTCAATTAATCCAAGGTTCTGGATAAATTTTACTT
GTTAGAAATGCACCAGACCAAAATACTGCATCAAGTAAGATGTGGAAATTACCATCAATATTCC
TAGAGCAGACTTCTCCATGTTTAGCGTGTAAAGGTGCAAGGTCTTGATTCCAGTAGCTAAAATT
TTCTTGCACATTTCAGTACCAAGGTGGATTCCATATGCTTTGACCGCCTCCTCGTTATCTTTAA
TAGGTTCCAGTGCAGCAGTGATCTCAGCTGGTATCTGTTATTAAATTCAAAATTTTCAGTGGCA
TTCTGTGGGAAACAATGTACAGCACATTGAAGCTTATACATAAATCCATGTCCATTTGAACTAT
CTCCATGCAATTACTAATCATGGAGCTACAGAAACAGGCTATACCTTAGTTTTGCAGAACCCTG
TCATGCGCAGGAAACCTTTGTAGTTATTTATAGGCATTATGCCAGGAACAATGGGGCAAGTTAT
GCCAATTTGGCGGCAGTCATTCACAAACTTGAGAAAGATATCAGTGTCATAGAAAAGCTGTGTA
ATGATAAGGTCAGCACCAGCATCAACCTGCAGTGAAAGTGTGCATTCGATAAGAAGCTGACAAA
GAACAAAGGTACGCTAAACAAACACCTATGTTTTCTAACAGTTTTACATAATTCCGAAATAAGA
TCTTATGCTAGACAATGTCCAGGTGATTAATTAATACAACAGAAGATGTTCTCATTTGAATGGA
AAAAGTCATTATCATGTGATCAAAGAGAACCTTTTGCTTCAAATAAGCAAGATCATTGCTGTAT
GCTTCTGGTGTAGCCCCTTCCGTACTTTGTATTGCATCCGGGTGGGCCTCTGACGTTTGAAACA
AAAATAAATAAATAAAGCTTCTAATTTTTAAGGTTTAATATCACTGTATAAAGCAGAAACGTTT
TGCTAACCTGGATAACCAGCAACAGTAATACCAAAATAATCACCATACTTGGCTCTAATGTGTT
GTACCTGCAATTGGAGAATAGAACGCAGGTTTGAATATAGTGGTGATTTCTCTCAGCAAATAAA
TGGTTTTTATATACATAATCCTAAATATTGGCAGCACCAATCAGCTCGCCACCATATCCTGGCC
TTTCTATCATAACTAATCGAAGAGATATTTACCAAATCAAGAGCACAAGCGAATCCACCAGCAA
CTTGAACAAATTTGTCCTGACCATGTGGAGGATCACCCCTAAGAGCCAGAACATTTTGAATCCC
ATTAGACTTTATTGTTGTTAAGGCATCATCAATCTTCTCAACTGGCATATTGGTGCATGTCAGG
TGCATCATTGTTTCCACACACAC
						
					

			
		

Sequences
Splice junction sequence	CATTTTGAATCCCATTAGACTTTATTGTTGTTAAGGCATCATCAATCTTCTCAACTGGCATATT GGTGCATGTCAGGTGCATCATTGTTTCCACACACACctggtagtcagtaagtgctccatacgat gggttccgggaatcaccccaccgcccatgtgggtattgatcccaaccaagggtccttgaaatat agctcttt
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: 888 Transcript exons: 34170043-34170154,34170245-34170345,34170415-34170588,34 170727-34170900,34171097-34171179,34171266-34171326,3417 1483-34171665 CTGGTAGTCAGTAAGTGCTCCATACGATGGGTTCCGGGAATCACCCCACCGCCCATGTGGGTAT TGATCCCAACCAAGGGTCCTTGAAATATAGCTCTTTGGTCTGTTAGCCCAGAATATAGGGCGGA CATCCTCCTTGACACGGAAAACATTTGTTGGGGGCCTCCAAGGCAATGACCTTGAGATCTTGGA CTCCTCAATTAATCCAAGGTTCATCAATATTCCTAGAGCAGACTTCTCCATGTTTAGCGTGTAA AGGTGCAAGGTCTTGATTCCAGTAGCTAAAATTTTCTTGCACATTTCAGTACCAAGGTGGATTC CATATGCTTTGACCGCCTCCTCGTTATCTTTAATAGGTTCCAGTGCAGCAGTGATCTCAGCTGG TATCTTAGTTTTGCAGAACCCTGTCATGCGCAGGAAACCTTTGTAGTTATTTATAGGCATTATG CCAGGAACAATGGGGCAAGTTATGCCAATTTGGCGGCAGTCATTCACAAACTTGAGAAAGATAT CAGTGTCATAGAAAAGCTGTGTAATGATAAGGTCAGCACCAGCATCAACCTTTTGCTTCAAATA AGCAAGATCATTGCTGTATGCTTCTGGTGTAGCCCCTTCCGTACTTTGTATTGCATCCGGGTGG GCCTCTGGATAACCAGCAACAGTAATACCAAAATAATCACCATACTTGGCTCTAATGTGTTGTA CCAAATCAAGAGCACAAGCGAATCCACCAGCAACTTGAACAAATTTGTCCTGACCATGTGGAGG ATCACCCCTAAGAGCCAGAACATTTTGAATCCCATTAGACTTTATTGTTGTTAAGGCATCATCA ATCTTCTCAACTGGCATATTGGTGCATGTCAGGTGCATCATTGTTTCCACACACAC
Genomic sequence	CTGGTAGTCAGTAAGTGCTCCATACGATGGGTTCCGGGAATCACCCCACCGCCCATGTGGGTAT TGATCCCAACCAAGGGTCCTTGAAATATAGCTCTTTGGTCTGTTAGCCCTGCTCAGTTATCATC ATTCACCAGATTGAATGAGTGTTTATAACAATAAGATTCAATTACCTTGACAAATATTTTTTTT AAACAACTACCAGAATATAGGGCGGACATCCTCCTTGACACGGAAAACATTTGTTGGGGGCCTC CAAGGCAATGACCTTGAGATCTTGGACTCCTCAATTAATCCAAGGTTCTGGATAAATTTTACTT GTTAGAAATGCACCAGACCAAAATACTGCATCAAGTAAGATGTGGAAATTACCATCAATATTCC TAGAGCAGACTTCTCCATGTTTAGCGTGTAAAGGTGCAAGGTCTTGATTCCAGTAGCTAAAATT TTCTTGCACATTTCAGTACCAAGGTGGATTCCATATGCTTTGACCGCCTCCTCGTTATCTTTAA TAGGTTCCAGTGCAGCAGTGATCTCAGCTGGTATCTGTTATTAAATTCAAAATTTTCAGTGGCA TTCTGTGGGAAACAATGTACAGCACATTGAAGCTTATACATAAATCCATGTCCATTTGAACTAT CTCCATGCAATTACTAATCATGGAGCTACAGAAACAGGCTATACCTTAGTTTTGCAGAACCCTG TCATGCGCAGGAAACCTTTGTAGTTATTTATAGGCATTATGCCAGGAACAATGGGGCAAGTTAT GCCAATTTGGCGGCAGTCATTCACAAACTTGAGAAAGATATCAGTGTCATAGAAAAGCTGTGTA ATGATAAGGTCAGCACCAGCATCAACCTGCAGTGAAAGTGTGCATTCGATAAGAAGCTGACAAA GAACAAAGGTACGCTAAACAAACACCTATGTTTTCTAACAGTTTTACATAATTCCGAAATAAGA TCTTATGCTAGACAATGTCCAGGTGATTAATTAATACAACAGAAGATGTTCTCATTTGAATGGA AAAAGTCATTATCATGTGATCAAAGAGAACCTTTTGCTTCAAATAAGCAAGATCATTGCTGTAT GCTTCTGGTGTAGCCCCTTCCGTACTTTGTATTGCATCCGGGTGGGCCTCTGACGTTTGAAACA AAAATAAATAAATAAAGCTTCTAATTTTTAAGGTTTAATATCACTGTATAAAGCAGAAACGTTT TGCTAACCTGGATAACCAGCAACAGTAATACCAAAATAATCACCATACTTGGCTCTAATGTGTT GTACCTGCAATTGGAGAATAGAACGCAGGTTTGAATATAGTGGTGATTTCTCTCAGCAAATAAA TGGTTTTTATATACATAATCCTAAATATTGGCAGCACCAATCAGCTCGCCACCATATCCTGGCC TTTCTATCATAACTAATCGAAGAGATATTTACCAAATCAAGAGCACAAGCGAATCCACCAGCAA CTTGAACAAATTTGTCCTGACCATGTGGAGGATCACCCCTAAGAGCCAGAACATTTTGAATCCC ATTAGACTTTATTGTTGTTAAGGCATCATCAATCTTCTCAACTGGCATATTGGTGCATGTCAGG TGCATCATTGTTTCCACACACAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.296663606

Conservation Information
Conserved circRNAs	NA
PMCS	0.296663606

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							34171652-34170045(-)
34170286-34171649(-)
						
						Potential amino acid sequence
						
							MMHLTCTNMPVEKIDDALTTIKSNGIQNVLALRGDPPHGQDKFVQVAGGFACALDLVQHIRAKY
GDYFGITVAGYPEAHPDAIQSTEGATPEAYSNDLAYLKQKVDAGADLIITQLFYDTDIFLKFVN
DCRQIGITCPIVPGIMPINNYKGFLRMTGFCKTKIPAEITAALEPIKDNEEAVKAYGIHLGTEM
CKKILATGIKTLHLYTLNMEKSALGILMNLGLIEESKISRSLPWRPPTNVFRVKEDVRPIFWAN
RPKSYISRTLGWDQYPHGRWGDSRNPSYGALTDYQVCVETMMHLTCTNMPVEKIDDALTTIKSN
GIQNVLALRGDPPHGQDKFVQVAGGFACALDLVQHIRAKYGDYFGITVAGYPEAHPDAIQSTEG
ATPEAYSNDLAYLKQKVDAGADLIITQLFYDTDIFLKFVNDCRQIGITCPIVPGIMPINNYKGF
LRMTGFCKTKIPAEITAALEPIKDNEEAVKAYGIHLGTEMCKKILATGIKTLHLYTLNMEKSAL
GILMNLGLIEESKISRSLPWRPPTNVFRVKEDVRPIFWANRPKSYISRTLGWDQYPHGRWGDSR
NPSYGALTDYQVCVETMMHLTCTNMPVEKIDDALTTIKSNGIQNVLALRGDPPHGQDKFVQVAG
GFACALDLVQHIRAKYGDYFGITVAGYPEAHPDAIQSTEGATPEAYSNDLAYLKQKVDAGADLI
ITQLFYDTDIFLKFVNDCRQIGITCPIVPGIMPINNYKGFLRMTGFCKTKIPAEITAALEPIKD
NEEAVKAYGIHLGTEMCKKILATGIKTLHLYTLNMEKSALGILMNLGLIEESKISRSLPWRPPT
NVFRVKEDVRPIFWANRPKSYISRTLGWDQYPHGRWGDSRNPSYGALTDYQVCVETMMHLTCTN
MPVEKIDDALTTIKSNGIQNVLALRGDPPHGQDKFVQVAGGFACALDLVQHIRAKYGDYFGITV
AGYPEAHPDAIQSTEGATPEAYSNDLAYLKQKVDAGADLIITQLFYDTDIFLKFVNDCRQIGIT
CPIVPGIMPINNYKGFLRMTGFCKTKIPAEITAALEPIKDNEEAVKAYGIHLGTEMCKKILATG
IKTLHLYTLNMEKSALGILMNLGLIEESKISRSLPWRPPTNVFRVKEDVRPIFWANRPKSYISR
TLGWDQYPHGRWGDSRNPSYGALTDYQ(-)
MFSVSRRMSALYSGLTDQRAIFQGPLVGINTHMGGGVIPGTHRMEHLLTTRCVWKQ*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	34171652-34170045(-) 34170286-34171649(-)
Potential amino acid sequence	MMHLTCTNMPVEKIDDALTTIKSNGIQNVLALRGDPPHGQDKFVQVAGGFACALDLVQHIRAKY GDYFGITVAGYPEAHPDAIQSTEGATPEAYSNDLAYLKQKVDAGADLIITQLFYDTDIFLKFVN DCRQIGITCPIVPGIMPINNYKGFLRMTGFCKTKIPAEITAALEPIKDNEEAVKAYGIHLGTEM CKKILATGIKTLHLYTLNMEKSALGILMNLGLIEESKISRSLPWRPPTNVFRVKEDVRPIFWAN RPKSYISRTLGWDQYPHGRWGDSRNPSYGALTDYQVCVETMMHLTCTNMPVEKIDDALTTIKSN GIQNVLALRGDPPHGQDKFVQVAGGFACALDLVQHIRAKYGDYFGITVAGYPEAHPDAIQSTEG ATPEAYSNDLAYLKQKVDAGADLIITQLFYDTDIFLKFVNDCRQIGITCPIVPGIMPINNYKGF LRMTGFCKTKIPAEITAALEPIKDNEEAVKAYGIHLGTEMCKKILATGIKTLHLYTLNMEKSAL GILMNLGLIEESKISRSLPWRPPTNVFRVKEDVRPIFWANRPKSYISRTLGWDQYPHGRWGDSR NPSYGALTDYQVCVETMMHLTCTNMPVEKIDDALTTIKSNGIQNVLALRGDPPHGQDKFVQVAG GFACALDLVQHIRAKYGDYFGITVAGYPEAHPDAIQSTEGATPEAYSNDLAYLKQKVDAGADLI ITQLFYDTDIFLKFVNDCRQIGITCPIVPGIMPINNYKGFLRMTGFCKTKIPAEITAALEPIKD NEEAVKAYGIHLGTEMCKKILATGIKTLHLYTLNMEKSALGILMNLGLIEESKISRSLPWRPPT NVFRVKEDVRPIFWANRPKSYISRTLGWDQYPHGRWGDSRNPSYGALTDYQVCVETMMHLTCTN MPVEKIDDALTTIKSNGIQNVLALRGDPPHGQDKFVQVAGGFACALDLVQHIRAKYGDYFGITV AGYPEAHPDAIQSTEGATPEAYSNDLAYLKQKVDAGADLIITQLFYDTDIFLKFVNDCRQIGIT CPIVPGIMPINNYKGFLRMTGFCKTKIPAEITAALEPIKDNEEAVKAYGIHLGTEMCKKILATG IKTLHLYTLNMEKSALGILMNLGLIEESKISRSLPWRPPTNVFRVKEDVRPIFWANRPKSYISR TLGWDQYPHGRWGDSRNPSYGALTDYQ(-) MFSVSRRMSALYSGLTDQRAIFQGPLVGINTHMGGGVIPGTHRMEHLLTTRCVWKQ*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015

circRNA

Detail information of Os03g0815200_circ_g.4

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