Plant Circular RNA Database

Detail information of Os07g0257200_circ_g.7

			
						 General Information
					
						CircRNA Name
						Os07g0257200_circ_g.7
					
						ID in PlantcircBase
						osa_circ_033329
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr7: 8875937-8877886  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os07g0257200						
					
						Parent gene annotation
						
							Manganese and Cadmium transporter, Mn and Cd uptake (Os07t025720
0-01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os07g0257200_circ_g.8 Os07g0257200_circ_g.9 Os07g0257200_circ_g.10 Os07g0257200_circ_g.11 Os07g0257200_circ_g.12 Os07g0257200_circ_g.13 Os07g0257200_circ_g.14 Os07g0257200_circ_g.15 Os07g0257200_circ_g.16 						
					
						Support reads
						1
					
						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
						Os07t0257200-01:5

General Information
CircRNA Name	Os07g0257200_circ_g.7
ID in PlantcircBase	osa_circ_033329
Alias	NA
Organism	Oryza sativa
Position	chr7: 8875937-8877886 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os07g0257200
Parent gene annotation	Manganese and Cadmium transporter, Mn and Cd uptake (Os07t025720 0-01)
Parent gene strand	-
Alternative splicing	Os07g0257200_circ_g.8 Os07g0257200_circ_g.9 Os07g0257200_circ_g.10 Os07g0257200_circ_g.11 Os07g0257200_circ_g.12 Os07g0257200_circ_g.13 Os07g0257200_circ_g.14 Os07g0257200_circ_g.15 Os07g0257200_circ_g.16
Support reads	1
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	Os07t0257200-01:5

			
						 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  
						
							AATTGCGTGTCATTTAGTCACCTGTAACCACTCCAAGATTAGCTGCTAGCGACTGTATGATAAG
TGCGAAGATGAGTCCAATCAGAATCACCCAGAGCAGcttgattcctctgactgatgccggtgtc
ttcctcgatagcaccaaggcagaatgcaagaacagattgtggctgcatatatataaatgcatgc
agtagtta

									
								

					

						Assembled circRNA sequence  
						
							NA
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
						
							NA						
					

						Genomic sequence
						
							CTTGATTCCTCTGACTGATGCCGGTGTCTTCCTCGATAGCACCAAGGCAGAATGCAAGAACAGA
TTGTGGCTGCATATATATAAATGCATGCAGTAGTTAATTAACTGATTAGTTGTATGAATTAATT
GATTGATTGTTGCGTATGTATGTATGTATGTAAAAGCGTACGGCATGACAAGAGCTCCGAGGAG
GGCAATGGCGTCGGCGGTGGCGCCGTCGCCGTTGAGCCTGGGGATGAAGAGCCCCTTCATCACC
TCCTTCGCCGGCGGCTTCACGATGCTCAGCTCCCCGAAGAAGCACGCCGCCATCACGAACACCA
GCATCGATATCAGAAACTCCAGCTTCCTCACCTGTTTTTTTTCAAAAAAAATTCATCAATCAAT
TTTCATGCAGTTCCACAGTCAGAGAAAAAAAACTGAATAATGTACATATAATATGCCATTTGAG
TACTTGACAATCGATCCAACTAGCTAATTTCATATACTATTCCATTTTTATAATCGTTTCTTTG
AGTGCATCCTACGCTAATGCTTGTGATACTAAACAAAAACAACTTACAAAAAATAATTTATACC
CCGTATTTTTGGAGGCCAAGAAGCAGTAGAGTGCTGGTGCCGGTGATGAGGACGCCGACCCACA
CCGGAATATGGAACAATATGTTGAAAGCAAAGGCCGTCCCTATAACTGCATCCACCAAAATTAA
CAACATCAAACGACATGTAATTAATTAATTAATTATAATCACATCGATCTGTACCTTTCTATCT
GTTGATCGATCTATCTATCTATCTATATATCACCTTTGCTATCATCATGTGAGGTATCTTCCAT
AACTAGTTTAATTTTTTTAAAAAAGAACTTGCATGCATGATCAATTAAAAAGGCAATTTACAAC
GGTTGAGGTTAACTAATCCCGATCAGCAAAGCTTCGCGCAGCTCCGTTTTGCAACTGCTACACC
ACTGATCTCTCTTCCATGTTGCTAGATAGATAGATATTTAGATATTGTTGTTATTGTTTAAACA
CACATGGATGTATACAGGACAGGACAAATGTGAAATGACAAGAGGGTGACAAAATAGTTGTTTA
CTAATCTGCGTAAGATGATGAACGTACTCACCCAGTGTTTAAAATCTAATCTTGATGTGCATCA
TTGACACTTTTATGGGAAGCTACTGTGGACGTGGTCACTCCTCTAAACAGCTAAAACGCGCATT
TGCTTATGTTTGAAACAGATTATTCAACAGATATATTATTGGTACATATTATCTACCTTATTAT
ATGGATGAATTAAATATTTTTTTAAAAAATGGCTTAGAACTTGTATTCTATGCAATATCGCAGA
ATATATTTTTTTTAGAAAAACATATTTACTAGCTAGAGACATGAAAGAAATAATATGTGAGAAT
AATCTGGTGAGTAGCTGAGAAGAACGTGGCTTGATGGTGATTGGTGAGATATTAATTTGCCTAT
GTTTGTGGATTAGGAATTCCAGTATGTAGGCCCGTACGGTTGGAGCTACATATGCTAGCCAGAT
CAACTTGTTTTCTTCTACTGTCAGAGAGCTTAAACTGAATTAATTAATTAGCTCAAAGTCAAAG
ATGGTGACACTGTTAAACACAAGTAGTTTAATAAATTAATTATTCAGGCTGGACCGTGTCAAGT
TGTTACTAATAAGTATATACCTTCTGGGATATCTGCAGCGATGACGGCCAACTCTGCCAGCAGC
CATAGGAAAATCTTGACGAACTTGGGGTACTCACTCTTGCAGATCTCAGCCAGATGCCTCCCTA
GGATGTAAATTAATGCCGGCCATATATTAGCACTTTATCAAGTTGGTAATTACAGTTTAATTGC
GTGTCATTTAGTCACCTGTAACCACTCCAAGATTAGCTGCTAGCGACTGTATGATAAGTGCGAA
GATGAGTCCAATCAGAATCACCCAGAGCAG
						
					

			
		

Sequences
Splice junction sequence	AATTGCGTGTCATTTAGTCACCTGTAACCACTCCAAGATTAGCTGCTAGCGACTGTATGATAAG TGCGAAGATGAGTCCAATCAGAATCACCCAGAGCAGcttgattcctctgactgatgccggtgtc ttcctcgatagcaccaaggcagaatgcaagaacagattgtggctgcatatatataaatgcatgc agtagtta
Assembled circRNA sequence	NA 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	NA
Genomic sequence	CTTGATTCCTCTGACTGATGCCGGTGTCTTCCTCGATAGCACCAAGGCAGAATGCAAGAACAGA TTGTGGCTGCATATATATAAATGCATGCAGTAGTTAATTAACTGATTAGTTGTATGAATTAATT GATTGATTGTTGCGTATGTATGTATGTATGTAAAAGCGTACGGCATGACAAGAGCTCCGAGGAG GGCAATGGCGTCGGCGGTGGCGCCGTCGCCGTTGAGCCTGGGGATGAAGAGCCCCTTCATCACC TCCTTCGCCGGCGGCTTCACGATGCTCAGCTCCCCGAAGAAGCACGCCGCCATCACGAACACCA GCATCGATATCAGAAACTCCAGCTTCCTCACCTGTTTTTTTTCAAAAAAAATTCATCAATCAAT TTTCATGCAGTTCCACAGTCAGAGAAAAAAAACTGAATAATGTACATATAATATGCCATTTGAG TACTTGACAATCGATCCAACTAGCTAATTTCATATACTATTCCATTTTTATAATCGTTTCTTTG AGTGCATCCTACGCTAATGCTTGTGATACTAAACAAAAACAACTTACAAAAAATAATTTATACC CCGTATTTTTGGAGGCCAAGAAGCAGTAGAGTGCTGGTGCCGGTGATGAGGACGCCGACCCACA CCGGAATATGGAACAATATGTTGAAAGCAAAGGCCGTCCCTATAACTGCATCCACCAAAATTAA CAACATCAAACGACATGTAATTAATTAATTAATTATAATCACATCGATCTGTACCTTTCTATCT GTTGATCGATCTATCTATCTATCTATATATCACCTTTGCTATCATCATGTGAGGTATCTTCCAT AACTAGTTTAATTTTTTTAAAAAAGAACTTGCATGCATGATCAATTAAAAAGGCAATTTACAAC GGTTGAGGTTAACTAATCCCGATCAGCAAAGCTTCGCGCAGCTCCGTTTTGCAACTGCTACACC ACTGATCTCTCTTCCATGTTGCTAGATAGATAGATATTTAGATATTGTTGTTATTGTTTAAACA CACATGGATGTATACAGGACAGGACAAATGTGAAATGACAAGAGGGTGACAAAATAGTTGTTTA CTAATCTGCGTAAGATGATGAACGTACTCACCCAGTGTTTAAAATCTAATCTTGATGTGCATCA TTGACACTTTTATGGGAAGCTACTGTGGACGTGGTCACTCCTCTAAACAGCTAAAACGCGCATT TGCTTATGTTTGAAACAGATTATTCAACAGATATATTATTGGTACATATTATCTACCTTATTAT ATGGATGAATTAAATATTTTTTTAAAAAATGGCTTAGAACTTGTATTCTATGCAATATCGCAGA ATATATTTTTTTTAGAAAAACATATTTACTAGCTAGAGACATGAAAGAAATAATATGTGAGAAT AATCTGGTGAGTAGCTGAGAAGAACGTGGCTTGATGGTGATTGGTGAGATATTAATTTGCCTAT GTTTGTGGATTAGGAATTCCAGTATGTAGGCCCGTACGGTTGGAGCTACATATGCTAGCCAGAT CAACTTGTTTTCTTCTACTGTCAGAGAGCTTAAACTGAATTAATTAATTAGCTCAAAGTCAAAG ATGGTGACACTGTTAAACACAAGTAGTTTAATAAATTAATTATTCAGGCTGGACCGTGTCAAGT TGTTACTAATAAGTATATACCTTCTGGGATATCTGCAGCGATGACGGCCAACTCTGCCAGCAGC CATAGGAAAATCTTGACGAACTTGGGGTACTCACTCTTGCAGATCTCAGCCAGATGCCTCCCTA GGATGTAAATTAATGCCGGCCATATATTAGCACTTTATCAAGTTGGTAATTACAGTTTAATTGC GTGTCATTTAGTCACCTGTAACCACTCCAAGATTAGCTGCTAGCGACTGTATGATAAGTGCGAA GATGAGTCCAATCAGAATCACCCAGAGCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.11737562

Conservation Information
Conserved circRNAs	NA
PMCS	0.11737562

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							8876110-8877883(+)
8876262-8875939(-)
8877669-8877827(-)
						
					

						Potential amino acid sequence
						
							MTRAPRRAMASAVAPSPLSLGMKSPFITSFAGGFTMLSSPKKHAAITNTSIDIRNSSFLTPYFW
RPRSSRVLVPVMRTPTHTGIWNNMLKAKAVPITSGISAAMTANSASSHRKILTNLGYSLLQISA
RCLPVTTPRLAASDCMISAKMSPIRITQSSLIPLTDAGVFLDSTKAECKNRLWGMTRAPRRAMA
SAVAPSPLSLGMKSPFITSFAGGFTMLSSPKKHAAITNTSIDIRNSSFLTPYFWRPRSSRVLVP
VMRTPTHTGIWNNMLKAKAVPITSGISAAMTANSASSHRKILTNLGYSLLQISARCLPVTTPRL
AASDCMISAKMSPIRITQSSLIPLTDAGVFLDSTKAECKNRLWGMTRAPRRAMASAVAPSPLSL
GMKSPFITSFAGGFTMLSSPKKHAAITNTSIDIRNSSFLTPYFWRPRSSRVLVPVMRTPTHTGI
WNNMLKAKAVPITSGISAAMTANSASSHRKILTNLGYSLLQISARCLPVTTPRLAASDCMISAK
MSPIRITQSSLIPLTDAGVFLDSTKAECKNRLWGMTRAPRRAMASAVAPSPLSLGMKSPFITSF
AGGFTMLSSPKKHAAITNTSIDIRNSSFLTPYFWRPRSSRVLVPVMRTPTHTGIWNNMLKAKAV
PITSGISAAMTANSASSHRKILTNLGYSLLQISARCLPVTTPRLAASDCMISAKMSPIRITQS(
+)
MLVFVMAACFFGELSIVKPPAKEVMKGLFIPRLNGDGATADAIALLGALVMPHNLFLHSALVLS
RKTPASVRGIKLLWVILIGLIFALIIQSLAANLGVVTGRHLAEICKSEYPKFVKIFLWLLAELA
VIAADIPEVIGTAFAFNILFHIPVWVGVLITGTSTLLLLGLQKYGVRKLEFLISMLVFVMAACF
FGELSIVKPPAKEVMKGLFIPRLNGDGATADAIALLGALVMPHNLFLHSALVLSRKTPASVRGI
KLLWVILIGLIFALIIQSLAANLGVVTGRHLAEICKSEYPKFVKIFLWLLAELAVIAADIPEVI
GTAFAFNILFHIPVWVGVLITGTSTLLLLGLQKYGVRKLEFLISMLVFVMAACFFGELSIVKPP
AKEVMKGLFIPRLNGDGATADAIALLGALVMPHNLFLHSALVLSRKTPASVRGIKLLWVILIGL
IFALIIQSLAANLGVVTGRHLAEICKSEYPKFVKIFLWLLAELAVIAADIPEVIGTAFAFNILF
HIPVWVGVLITGTSTLLLLGLQKYGVRKLEFLISMLVFVMAACFFGELSIVKPPAKEVMKGLFI
PRLNGDGATADAIALLGALVMPHNLFLHSALVLSRKTPASVRGIK(-)
MAAGRVGRHRCRYPRSYRDGLCFQHIVPYSGVGRRPHHRHQHSTASWPPKIRGEEAGVSDIDAG
VRDGGVLLRGAEHREAAGEGGDEGALHPQAQRRRRHRRRHCPPRSSCHAPQSVLAFCLGAIEED
TGISQRNQAALGDSDWTHLRTYHTVASS*(-)
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	8876110-8877883(+) 8876262-8875939(-) 8877669-8877827(-)
Potential amino acid sequence	MTRAPRRAMASAVAPSPLSLGMKSPFITSFAGGFTMLSSPKKHAAITNTSIDIRNSSFLTPYFW RPRSSRVLVPVMRTPTHTGIWNNMLKAKAVPITSGISAAMTANSASSHRKILTNLGYSLLQISA RCLPVTTPRLAASDCMISAKMSPIRITQSSLIPLTDAGVFLDSTKAECKNRLWGMTRAPRRAMA SAVAPSPLSLGMKSPFITSFAGGFTMLSSPKKHAAITNTSIDIRNSSFLTPYFWRPRSSRVLVP VMRTPTHTGIWNNMLKAKAVPITSGISAAMTANSASSHRKILTNLGYSLLQISARCLPVTTPRL AASDCMISAKMSPIRITQSSLIPLTDAGVFLDSTKAECKNRLWGMTRAPRRAMASAVAPSPLSL GMKSPFITSFAGGFTMLSSPKKHAAITNTSIDIRNSSFLTPYFWRPRSSRVLVPVMRTPTHTGI WNNMLKAKAVPITSGISAAMTANSASSHRKILTNLGYSLLQISARCLPVTTPRLAASDCMISAK MSPIRITQSSLIPLTDAGVFLDSTKAECKNRLWGMTRAPRRAMASAVAPSPLSLGMKSPFITSF AGGFTMLSSPKKHAAITNTSIDIRNSSFLTPYFWRPRSSRVLVPVMRTPTHTGIWNNMLKAKAV PITSGISAAMTANSASSHRKILTNLGYSLLQISARCLPVTTPRLAASDCMISAKMSPIRITQS( +) MLVFVMAACFFGELSIVKPPAKEVMKGLFIPRLNGDGATADAIALLGALVMPHNLFLHSALVLS RKTPASVRGIKLLWVILIGLIFALIIQSLAANLGVVTGRHLAEICKSEYPKFVKIFLWLLAELA VIAADIPEVIGTAFAFNILFHIPVWVGVLITGTSTLLLLGLQKYGVRKLEFLISMLVFVMAACF FGELSIVKPPAKEVMKGLFIPRLNGDGATADAIALLGALVMPHNLFLHSALVLSRKTPASVRGI KLLWVILIGLIFALIIQSLAANLGVVTGRHLAEICKSEYPKFVKIFLWLLAELAVIAADIPEVI GTAFAFNILFHIPVWVGVLITGTSTLLLLGLQKYGVRKLEFLISMLVFVMAACFFGELSIVKPP AKEVMKGLFIPRLNGDGATADAIALLGALVMPHNLFLHSALVLSRKTPASVRGIKLLWVILIGL IFALIIQSLAANLGVVTGRHLAEICKSEYPKFVKIFLWLLAELAVIAADIPEVIGTAFAFNILF HIPVWVGVLITGTSTLLLLGLQKYGVRKLEFLISMLVFVMAACFFGELSIVKPPAKEVMKGLFI PRLNGDGATADAIALLGALVMPHNLFLHSALVLSRKTPASVRGIK(-) MAAGRVGRHRCRYPRSYRDGLCFQHIVPYSGVGRRPHHRHQHSTASWPPKIRGEEAGVSDIDAG VRDGGVLLRGAEHREAAGEGGDEGALHPQAQRRRRHRRRHCPPRSSCHAPQSVLAFCLGAIEED TGISQRNQAALGDSDWTHLRTYHTVASS*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os07g0257200_circ_g.7

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