Plant Circular RNA Database

Detail information of Os12g0128700_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os12g0128700_circ_g.2
					
						ID in PlantcircBase
						osa_circ_010405
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr12: 1360342-1362821  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os12g0128700						
					
						Parent gene annotation
						
							Similar to Arabinoxylan arabinofuranohydrolase isoenzyme AXAH-II
. (Os12t0128700-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os12g0128700_circ_g.1 Os12g0128700_circ_g.3 Os12g0128700_circ_igg.1 Os12g0128700_circ_g.2 Os12g0128700_circ_ag.1 Os12g0128700_circ_g.2 Os12g0128700_circ_g.3 Os12g0128700_circ_g.4 Os12g0128800_circ_g.1 Os12g0128800_circ_g.2 Os12g0129000_circ_g.1 Os12g0129000_circ_g.2 Os12g0129300_circ_g.1 						
					
						Support reads
						1
					
						Tissues
						shoot
					
						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  
						
							GT-AG							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
						Os12t0128700-01:7

General Information
CircRNA Name	Os12g0128700_circ_g.2
ID in PlantcircBase	osa_circ_010405
Alias	NA
Organism	Oryza sativa
Position	chr12: 1360342-1362821 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer
Parent gene	Os12g0128700
Parent gene annotation	Similar to Arabinoxylan arabinofuranohydrolase isoenzyme AXAH-II . (Os12t0128700-01)
Parent gene strand	+
Alternative splicing	Os12g0128700_circ_g.1 Os12g0128700_circ_g.3 Os12g0128700_circ_igg.1 Os12g0128700_circ_g.2 Os12g0128700_circ_ag.1 Os12g0128700_circ_g.2 Os12g0128700_circ_g.3 Os12g0128700_circ_g.4 Os12g0128800_circ_g.1 Os12g0128800_circ_g.2 Os12g0129000_circ_g.1 Os12g0129000_circ_g.2 Os12g0129300_circ_g.1
Support reads	1
Tissues	shoot
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	GT-AG 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	Os12t0128700-01:7

			
						 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  
						
							GAGGGAATCTATTGGTCCATGGGAAGAGAGGCCTGGACACTTTGGGGATGTTTGGCATTACTGG
ACTGATGATGGCCTTGGATATTATGAGTTTCTCCAGacacacgacctgcactagtgtttacagc
tccaagtatgggttccagagaacccttcctgagtgccatcttcttcttcttcttcttgcttttg
ttctgcct

									
								

					

						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: 962
Transcript exons: 1360342-1360565,1360721-1360775,1361553-1361749,1361999-
1362120,1362206-1362353,1362502-1362571,1362676-1362821
ACACACGACCTGCACTAGTGTTTACAGCTCCAAGTATGGGTTCCAGAGAACCCTTCCTGAGTGC
CATCTTCTTCTTCTTCTTCTTGCTTTTGTTCTGCCTCGGCTGCAAGTGTATAGCTTCAGAGTTA
CACTTACACACGACCCAGACTGCGGTCCTCAAGGTTGATGCCTCACTGCAACATGCTCGACAGA
TCCCCGACACGCTATTTGGAATATTTTTTGAGGAAATCAACCATGCAGGAGCTGGTGGAATATG
GGCTGAACTTGTTAGTAACAGAGGTTTTGAAGCTGGAGGCCCTCATACCCCATCAAACATTGAT
CCATGGTCCATAATTGGAGATGACTCTTCCATATTTGTGGCGACTGATCGAACGTCATGTTTCA
GTCGGAATACTGTTGCTCTAAGGATGGAGGTTCTCTGTGACAATTGCCCAGCTGGTGGTGTTGG
CATTTATAACCCAGGATTCTGGGGCATGAACATAGAAGATGGAAAGACCTACAATTTAGTGATG
TATGTTAAATCACCAGAAACTGTGGAGTTGACAGTTTCCTTGACAAGTTCTGATGGGTCGCAAA
ATCTGGCTTCAAGTACCATACCGGTTTCTGGTGCGTCGAATTGGACAAAACTGGAGCAGAAGTT
GGTTGCTAAAGGAACAAATAGAACCTCAAGGCTTCAAATAACAACTACCAAGAAGGGAGTTGTA
TGGTTTGATCAAGTCTCTCTCATGTCTGCAGACACTTACAAGGGACATGGTTTTCGCACAGAAC
TAATATCTATGATGTTGGACTTAAAACCACGATTCTTGAGATTCCCTGGAGGTTGCTTCGTGGA
GGGTGAATGGTTAAGAAACGCATTCAGGTGGAGGGAATCTATTGGTCCATGGGAAGAGAGGCCT
GGACACTTTGGGGATGTTTGGCATTACTGGACTGATGATGGCCTTGGATATTATGAGTTTCTCC
AG
						
					

						Genomic sequence
						
							ACACACGACCTGCACTAGTGTTTACAGCTCCAAGTATGGGTTCCAGAGAACCCTTCCTGAGTGC
CATCTTCTTCTTCTTCTTCTTGCTTTTGTTCTGCCTCGGCTGCAAGTGTATAGCTTCAGAGTTA
CACTTACACACGACCCAGACTGCGGTCCTCAAGGTTGATGCCTCACTGCAACATGCTCGACAGA
TCCCCGACACGCTATTTGGAATATTTTTTGAGGTAAACCGTAAGATACATATAGTAATTTTGTT
TTGCACAATTGCATTATATCACTTTGTCCTTTCCTCTGGCACTTTGTTAGCATGTCTAGAATAA
GTCAGGTAGACTACATGTTTCACTATGTCCTGATGGCAATTTCTTGGCTAATATTGTAGGAAAT
CAACCATGCAGGAGCTGGTGGAATATGGGCTGAACTTGTTAGTAACAGAGGTACTTCAATTATT
CTTTAATGCAAGATATGCACTTATTTTGTTCCATCGTCCAGATAAAACATAATTTGCTTCTGGA
TGAACATGAATAACTTATTCTGCAATCCGATGGAACACAAACACATGGCTTTAAAAAAATCCTT
TTGTTATTTTTTTTTGCTGGGCCGGCAAAAACCGGCAGAGTTGTATATTAAGAAGAAAAGAAAG
TTTTACAAGTACACCCTAAGCCAGGGGTGGCTTAGGCTACAGTGAATCGTCTCAGCGATTTAGC
CTACAGACAAACTTAGGCTACAGTGAATCGTCTCAGCGATTTAGCCAGCATCGATCGCGCTCAA
CAGGCCGGCGGCCTTCCATGTTTCCCACTCATCAGCGATGGTAGCACAGAGGTGTACCGCCGAT
GTGGTTTTTCCATCAAACGCGTGCATTTCGTTCCTTCCAAACTAACCACGTTACCAGGATAACC
CCGGCGTCGAAGGTCTTCCGATCCGTCTTATGAACCGATTTGTGCGCCTCGCACCACCAGCACA
GTAGGAAATCCTTTTGTTATTGTCTTTACTCGAAAATTCTCCCTACTATCTTATTAACTAAATT
ATGTTTTTCCCATGAACTTAAAAAAAGAGTTTAATTTTTTTTAGCATAACTGTAATTCTGTAAA
CTTGGAACACAAAACTTTGATTAGGAGCATAAACTGGATGGGATGCAAAATAATATGCCCTTTC
ATGGAAGCTATATTGACATGTAGGGCTTAGTATAACCAGCTTATGAGTTTTATGCACAGGTTTT
GAAGCTGGAGGCCCTCATACCCCATCAAACATTGATCCATGGTCCATAATTGGAGATGACTCTT
CCATATTTGTGGCGACTGATCGAACGTCATGTTTCAGTCGGAATACTGTTGCTCTAAGGATGGA
GGTTCTCTGTGACAATTGCCCAGCTGGTGGTGTTGGCATTTATAACCCAGGATTCTGGGGCATG
GTATGGGTTTATGTATTGTTGTTCTTTAGTTTGTTTTCCTCATAGTACTGCTACCATTTTGCTG
TATTTTCTCATGAAATTACCTAGTAAATCATGGACCTCCACACGTTCTGTTTCAAATTTTCATG
TAGCGATATTTCTTTCGTGCACTTGTGTTGGGCAAAATATGGTAAACATTTGCTTTCCTAACTT
TTGCAATGCTTCCTTTCCAATGCTTTGATCGCCCTTAATTGTCATATCAACCTGCAGAACATAG
AAGATGGAAAGACCTACAATTTAGTGATGTATGTTAAATCACCAGAAACTGTGGAGTTGACAGT
TTCCTTGACAAGTTCTGATGGGTCGCAAAATCTGGCTTCAAGTACCATACCGTCAGTGCCTTTG
CTCTCAATACTGGGACAGGAGAACAAGGATGTCTGCCCATTCCCATTAGTTGAAAGAATTATAT
TGTTGCAGGGTTTCTGGTGCGTCGAATTGGACAAAACTGGAGCAGAAGTTGGTTGCTAAAGGAA
CAAATAGAACCTCAAGGCTTCAAATAACAACTACCAAGAAGGGAGTTGTATGGTTTGATCAAGT
CTCTCTCATGTCTGCAGACACTTACAAGGTACATTATATTTTGTTATCAAACTTCGTTACTGGA
AAAGGAAAACGATATCATGGACTTTTTCATGCTATCTCTATATAGTGTATGATACCACTTAAAT
CTTCATGGGCTTTTTCTACTGCTTCCAACATTTCTTTTACACATTCAGGGACATGGTTTTCGCA
CAGAACTAATATCTATGATGTTGGACTTAAAACCACGATTCTTGAGATTCCCTGGTATGAGCTA
TATTTTCCAATTGAAAATCAAGTTCTTGATATCTGCACATATATGTCAGACGTGTCTGGGATAA
TTGACTTGATTTCCATTCAAACAATTGTAGGAGGTTGCTTCGTGGAGGGTGAATGGTTAAGAAA
CGCATTCAGGTGGAGGGAATCTATTGGTCCATGGGAAGAGAGGCCTGGACACTTTGGGGATGTT
TGGCATTACTGGACTGATGATGGCCTTGGATATTATGAGTTTCTCCAG
						
					

			
		

Sequences
Splice junction sequence	GAGGGAATCTATTGGTCCATGGGAAGAGAGGCCTGGACACTTTGGGGATGTTTGGCATTACTGG ACTGATGATGGCCTTGGATATTATGAGTTTCTCCAGacacacgacctgcactagtgtttacagc tccaagtatgggttccagagaacccttcctgagtgccatcttcttcttcttcttcttgcttttg ttctgcct
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: 962 Transcript exons: 1360342-1360565,1360721-1360775,1361553-1361749,1361999- 1362120,1362206-1362353,1362502-1362571,1362676-1362821 ACACACGACCTGCACTAGTGTTTACAGCTCCAAGTATGGGTTCCAGAGAACCCTTCCTGAGTGC CATCTTCTTCTTCTTCTTCTTGCTTTTGTTCTGCCTCGGCTGCAAGTGTATAGCTTCAGAGTTA CACTTACACACGACCCAGACTGCGGTCCTCAAGGTTGATGCCTCACTGCAACATGCTCGACAGA TCCCCGACACGCTATTTGGAATATTTTTTGAGGAAATCAACCATGCAGGAGCTGGTGGAATATG GGCTGAACTTGTTAGTAACAGAGGTTTTGAAGCTGGAGGCCCTCATACCCCATCAAACATTGAT CCATGGTCCATAATTGGAGATGACTCTTCCATATTTGTGGCGACTGATCGAACGTCATGTTTCA GTCGGAATACTGTTGCTCTAAGGATGGAGGTTCTCTGTGACAATTGCCCAGCTGGTGGTGTTGG CATTTATAACCCAGGATTCTGGGGCATGAACATAGAAGATGGAAAGACCTACAATTTAGTGATG TATGTTAAATCACCAGAAACTGTGGAGTTGACAGTTTCCTTGACAAGTTCTGATGGGTCGCAAA ATCTGGCTTCAAGTACCATACCGGTTTCTGGTGCGTCGAATTGGACAAAACTGGAGCAGAAGTT GGTTGCTAAAGGAACAAATAGAACCTCAAGGCTTCAAATAACAACTACCAAGAAGGGAGTTGTA TGGTTTGATCAAGTCTCTCTCATGTCTGCAGACACTTACAAGGGACATGGTTTTCGCACAGAAC TAATATCTATGATGTTGGACTTAAAACCACGATTCTTGAGATTCCCTGGAGGTTGCTTCGTGGA GGGTGAATGGTTAAGAAACGCATTCAGGTGGAGGGAATCTATTGGTCCATGGGAAGAGAGGCCT GGACACTTTGGGGATGTTTGGCATTACTGGACTGATGATGGCCTTGGATATTATGAGTTTCTCC AG
Genomic sequence	ACACACGACCTGCACTAGTGTTTACAGCTCCAAGTATGGGTTCCAGAGAACCCTTCCTGAGTGC CATCTTCTTCTTCTTCTTCTTGCTTTTGTTCTGCCTCGGCTGCAAGTGTATAGCTTCAGAGTTA CACTTACACACGACCCAGACTGCGGTCCTCAAGGTTGATGCCTCACTGCAACATGCTCGACAGA TCCCCGACACGCTATTTGGAATATTTTTTGAGGTAAACCGTAAGATACATATAGTAATTTTGTT TTGCACAATTGCATTATATCACTTTGTCCTTTCCTCTGGCACTTTGTTAGCATGTCTAGAATAA GTCAGGTAGACTACATGTTTCACTATGTCCTGATGGCAATTTCTTGGCTAATATTGTAGGAAAT CAACCATGCAGGAGCTGGTGGAATATGGGCTGAACTTGTTAGTAACAGAGGTACTTCAATTATT CTTTAATGCAAGATATGCACTTATTTTGTTCCATCGTCCAGATAAAACATAATTTGCTTCTGGA TGAACATGAATAACTTATTCTGCAATCCGATGGAACACAAACACATGGCTTTAAAAAAATCCTT TTGTTATTTTTTTTTGCTGGGCCGGCAAAAACCGGCAGAGTTGTATATTAAGAAGAAAAGAAAG TTTTACAAGTACACCCTAAGCCAGGGGTGGCTTAGGCTACAGTGAATCGTCTCAGCGATTTAGC CTACAGACAAACTTAGGCTACAGTGAATCGTCTCAGCGATTTAGCCAGCATCGATCGCGCTCAA CAGGCCGGCGGCCTTCCATGTTTCCCACTCATCAGCGATGGTAGCACAGAGGTGTACCGCCGAT GTGGTTTTTCCATCAAACGCGTGCATTTCGTTCCTTCCAAACTAACCACGTTACCAGGATAACC CCGGCGTCGAAGGTCTTCCGATCCGTCTTATGAACCGATTTGTGCGCCTCGCACCACCAGCACA GTAGGAAATCCTTTTGTTATTGTCTTTACTCGAAAATTCTCCCTACTATCTTATTAACTAAATT ATGTTTTTCCCATGAACTTAAAAAAAGAGTTTAATTTTTTTTAGCATAACTGTAATTCTGTAAA CTTGGAACACAAAACTTTGATTAGGAGCATAAACTGGATGGGATGCAAAATAATATGCCCTTTC ATGGAAGCTATATTGACATGTAGGGCTTAGTATAACCAGCTTATGAGTTTTATGCACAGGTTTT GAAGCTGGAGGCCCTCATACCCCATCAAACATTGATCCATGGTCCATAATTGGAGATGACTCTT CCATATTTGTGGCGACTGATCGAACGTCATGTTTCAGTCGGAATACTGTTGCTCTAAGGATGGA GGTTCTCTGTGACAATTGCCCAGCTGGTGGTGTTGGCATTTATAACCCAGGATTCTGGGGCATG GTATGGGTTTATGTATTGTTGTTCTTTAGTTTGTTTTCCTCATAGTACTGCTACCATTTTGCTG TATTTTCTCATGAAATTACCTAGTAAATCATGGACCTCCACACGTTCTGTTTCAAATTTTCATG TAGCGATATTTCTTTCGTGCACTTGTGTTGGGCAAAATATGGTAAACATTTGCTTTCCTAACTT TTGCAATGCTTCCTTTCCAATGCTTTGATCGCCCTTAATTGTCATATCAACCTGCAGAACATAG AAGATGGAAAGACCTACAATTTAGTGATGTATGTTAAATCACCAGAAACTGTGGAGTTGACAGT TTCCTTGACAAGTTCTGATGGGTCGCAAAATCTGGCTTCAAGTACCATACCGTCAGTGCCTTTG CTCTCAATACTGGGACAGGAGAACAAGGATGTCTGCCCATTCCCATTAGTTGAAAGAATTATAT TGTTGCAGGGTTTCTGGTGCGTCGAATTGGACAAAACTGGAGCAGAAGTTGGTTGCTAAAGGAA CAAATAGAACCTCAAGGCTTCAAATAACAACTACCAAGAAGGGAGTTGTATGGTTTGATCAAGT CTCTCTCATGTCTGCAGACACTTACAAGGTACATTATATTTTGTTATCAAACTTCGTTACTGGA AAAGGAAAACGATATCATGGACTTTTTCATGCTATCTCTATATAGTGTATGATACCACTTAAAT CTTCATGGGCTTTTTCTACTGCTTCCAACATTTCTTTTACACATTCAGGGACATGGTTTTCGCA CAGAACTAATATCTATGATGTTGGACTTAAAACCACGATTCTTGAGATTCCCTGGTATGAGCTA TATTTTCCAATTGAAAATCAAGTTCTTGATATCTGCACATATATGTCAGACGTGTCTGGGATAA TTGACTTGATTTCCATTCAAACAATTGTAGGAGGTTGCTTCGTGGAGGGTGAATGGTTAAGAAA CGCATTCAGGTGGAGGGAATCTATTGGTCCATGGGAAGAGAGGCCTGGACACTTTGGGGATGTT TGGCATTACTGGACTGATGATGGCCTTGGATATTATGAGTTTCTCCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.235457789

Conservation Information
Conserved circRNAs	NA
PMCS	0.235457789

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							1362770-1360504(+)
1360378-1360356(+)
1360410-1362732(-)
						
						Potential amino acid sequence
						
							MFGITGLMMALDIMSFSRHTTCTSVYSSKYGFQRTLPECHLLLLLLAFVLPRLQVYSFRVTLTH
DPDCGPQG*(+)
MGSREPFLSAIFFFFFLLLFCLGCKCIASELHLHTTQTAVLKVDASLQHARQIPDTLFGIFFEE
INHAGAGGIWAELVSNRGFEAGGPHTPSNIDPWSIIGDDSSIFVATDRTSCFSRNTVALRMEVL
CDNCPAGGVGIYNPGFWGMNIEDGKTYNLVMYVKSPETVELTVSLTSSDGSQNLASSTIPVSGA
SNWTKLEQKLVAKGTNRTSRLQITTTKKGVVWFDQVSLMSADTYKGHGFRTELISMMLDLKPRF
LRFPGGCFVEGEWLRNAFRWRESIGPWEERPGHFGDVWHYWTDDGLGYYEFLQTHDLH*(+)
MALRKGSLEPILGAVNTSAGRVSGETHNIQGHHQSSNAKHPQSVQASLPMDQ*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	1362770-1360504(+) 1360378-1360356(+) 1360410-1362732(-)
Potential amino acid sequence	MFGITGLMMALDIMSFSRHTTCTSVYSSKYGFQRTLPECHLLLLLLAFVLPRLQVYSFRVTLTH DPDCGPQG(+) MGSREPFLSAIFFFFFLLLFCLGCKCIASELHLHTTQTAVLKVDASLQHARQIPDTLFGIFFEE INHAGAGGIWAELVSNRGFEAGGPHTPSNIDPWSIIGDDSSIFVATDRTSCFSRNTVALRMEVL CDNCPAGGVGIYNPGFWGMNIEDGKTYNLVMYVKSPETVELTVSLTSSDGSQNLASSTIPVSGA SNWTKLEQKLVAKGTNRTSRLQITTTKKGVVWFDQVSLMSADTYKGHGFRTELISMMLDLKPRF LRFPGGCFVEGEWLRNAFRWRESIGPWEERPGHFGDVWHYWTDDGLGYYEFLQTHDLH(+) MALRKGSLEPILGAVNTSAGRVSGETHNIQGHHQSSNAKHPQSVQASLPMDQ*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os12g0128700_circ_g.2

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