Plant Circular RNA Database

Detail information of Os02g0132300_circ_g.4

			
						 General Information
					
						CircRNA Name
						Os02g0132300_circ_g.4
					
						ID in PlantcircBase
						osa_circ_012993
					
						Alias
						Os_ciR4186
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr2: 1681448-1683602  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os02g0132300						
					
						Parent gene annotation
						
							Similar to Erythrocyte membrane protein PFEMP3 (Fragment). (Os02
t0132300-01);Similar to Erythrocyte membrane protein PFEMP3 (Fra
gment). (Os02t0132300-02);Similar to Erythrocyte membrane protei
n PFEMP3 (Fragment). (Os02t0132300-03)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os02g0132300_circ_g.3 Os02g0132300_circ_g.5 Os02g0132300_circ_g.6 						
					
						Support reads
						10/5
					
						Tissues
						root/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  
						
							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
						Os02t0132300-03:5
Os02t0132300-01:5
Os02t0132300-02:5

General Information
CircRNA Name	Os02g0132300_circ_g.4
ID in PlantcircBase	osa_circ_012993
Alias	Os_ciR4186
Organism	Oryza sativa
Position	chr2: 1681448-1683602 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os02g0132300
Parent gene annotation	Similar to Erythrocyte membrane protein PFEMP3 (Fragment). (Os02 t0132300-01);Similar to Erythrocyte membrane protein PFEMP3 (Fra gment). (Os02t0132300-02);Similar to Erythrocyte membrane protei n PFEMP3 (Fragment). (Os02t0132300-03)
Parent gene strand	+
Alternative splicing	Os02g0132300_circ_g.3 Os02g0132300_circ_g.5 Os02g0132300_circ_g.6
Support reads	10/5
Tissues	root/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	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	Os02t0132300-03:5 Os02t0132300-01:5 Os02t0132300-02:5

			
						 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  
						
							TTTGGTTGGTTTGCTGTATGGATTCTTCATAGCTATAATATGTGGGCAGAGGATCACAGAACGG
CATTACCATGTTCTTGCAAAGCAAGAGTTAACCAAGgatttaatttcaacacatgactggtgaa
atgtttgcttgatgatgtccggacatgatttcagtattgttcataatgcagttggcatctcatg
ccactcaa

									
								

					

						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: 778
Transcript exons: 1681448-1681776,1681910-1681995,1682117-1682263,1682669-
1682771,1683490-1683602
GATTTAATTTCAACACATGACTGGTGAAATGTTTGCTTGATGATGTCCGGACATGATTTCAGTA
TTGTTCATAATGCAGTTGGCATCTCATGCCACTCAAGCAGATGAAGCAACAGAGCTTGCTTCCA
GCTGTGATTGTGCAGAAGTGCCAGCTTCACAGCAGATAGTTTCTGAATCAAGTACAGCAGGAAG
CTCCACAGAGCATCTAGTTTCATGTGAAATCAAGCCACTGGGTGTTGATGAAGACATTGAAACT
ATTGATGCTAACGAAGAAACCCACCTTGTCATTCAAGACTGTCCACAATGCCGGATTTGCCTTG
ATAATGAAGGTGATGACTTGATTGCACCTTGTCATTGCAAGGGCACACAGAAATACGTGCATCG
ATCCTGTCTTGATAACTGGAGATCAACAAAGGAAGGTTTTGCCTTTTCACATTGCACTGAGTGT
CGGGCTGCCTTCTTACTTCGTGCAAATGTTCCTCCAGATCGATGGTGGTTGAGATTGAAGTTTC
AACTTCTGGTTGTTAGAGATCACACGTTGATTTTTTTTATTGTACAACTGGTTGTTGCTTTATT
GGGTATGCTAGTATACAGATTTTATGGAGATGAACTACGAGAAATGTTTGGTTATGAAGAGCAT
CCATATGCTTTTTATGCAATGGCAATATTGGCTATTGTTTTGGTTGGTTTGCTGTATGGATTCT
TCATAGCTATAATATGTGGGCAGAGGATCACAGAACGGCATTACCATGTTCTTGCAAAGCAAGA
GTTAACCAAG
						
					

						Genomic sequence
						
							GATTTAATTTCAACACATGACTGGTGAAATGTTTGCTTGATGATGTCCGGACATGATTTCAGTA
TTGTTCATAATGCAGTTGGCATCTCATGCCACTCAAGCAGATGAAGCAACAGAGCTTGCTTCCA
GCTGTGATTGTGCAGAAGTGCCAGCTTCACAGCAGATAGTTTCTGAATCAAGTACAGCAGGAAG
CTCCACAGAGCATCTAGTTTCATGTGAAATCAAGCCACTGGGTGTTGATGAAGACATTGAAACT
ATTGATGCTAACGAAGAAACCCACCTTGTCATTCAAGACTGTCCACAATGCCGGATTTGCCTTG
ATAATGAAGGTCCATTCTGTGACTTGAAGTATCTTTCTTATGGAGTGCCATAAAGGCTTTCGAT
TTTTTTTTTGATAATATTCATATTTTTATGTTGAGTCTACATTTGATCTGATATTTTTTCCATA
TCCACTACAAGCAGGTGATGACTTGATTGCACCTTGTCATTGCAAGGGCACACAGAAATACGTG
CATCGATCCTGTCTTGATAACTGGAGATCAACAAAGGTGGATTCATGAACATTTGCTCTTTATG
CTTCATGTACCTATATTTACTGCCATCGCAGAATCCAGTTAATCATTAACCTAATCCAGCTCTG
ACCTAGTTTCTATGTTACATTTCCACCAGGAAGGTTTTGCCTTTTCACATTGCACTGAGTGTCG
GGCTGCCTTCTTACTTCGTGCAAATGTTCCTCCAGATCGATGGTGGTTGAGATTGAAGTTTCAA
CTTCTGGTTGTTAGAGATCACACGTTGATTTTTTTTATTGTACAACTGGTACGAGTTCCACACC
TTCTGTAATCTAATTCAACAAACTGTTTTTTCTTTACTGAACCAATACTGAATACATCTCAGTA
GGATTTCTCCAACTGTTTACCCTAAAAAATGAACATGCTACAATACTGAACTCAAGCATGACAT
GGTTGCACCTTATTCTGTTAATGTATAAAGCAGTAATGATTTTATGGATTTATATTGATATCAC
CATTTCTTTGAAGAGATGTGGTAGTTAGTTCACTGACTTCTTACTAATACATTGCCATGATTTC
TGGCGTGAGATCCAAAAGATAAACGTTTTTGAATAAATGCACAAGAAAGAGGCCTGAAAATGGT
CACGATGTGCTGCTGTAAGATGCATCTTTGTTTTTGTCTTACAATCTTATCCGTTTTCCTGCCT
GATAGGTTGTTGCTTTATTGGGTATGCTAGTATACAGATTTTATGGAGATGAACTACGAGAAAT
GTTTGGTTATGAAGAGCATCCATATGCTTTTTATGCAATGGCAAGTAAGTTACTTTTTCATAGT
GATATCTGGAAATGTCATGAACTGCATCTTATCTAGAAAGCTCATAGAGAACTGAAAAACTTAT
CGTTTTCTTGTGTAGCATCTGTTCATGTTGATCCAGTTCATGACATGTACTGTCAACATGGCCT
GGCATTTATGTCTCTAAAGAAAGTCACTCCATTCTATTACATCTTTCATTTCATACTTATAGCT
ACCATTTAAAAATATGGTGTGGAACCAAAGTACAGTGCAATTTATGTAGAATTGCTTTTATGTA
TTGTGAAGATCATCGCGCAGTTTATAATGGCAGCTATAGCTTTGGGCCTTTGAGATGAAAGATA
ACATATACTACACTTAATGTTGGGCGTCCATGATTATCTAAGTGCTCTCTATGTAAATGGAATC
ACGGAAGATGCTTTTCAGAGGGATTTGTTTCCATGGTTCTTTTAGAAGACTGCACGAATTGTAA
CATAGTCAAAACAAAAGTCTATGTGGTCAGAGGGAACTAAAAGCAACTGGCAGATTAGATGAGA
ACGCCGATAGCACATATCTCCTTTGTTGGCATTTAACTCAATGCATGTGATTGCACAGGTCTTG
ATGTACATATTTTTGCCCTGTGAATGTTGTCTGTGTACAGGAATAAGAACTATATCCTCTACTT
CTACGTTAAAAACTTGTTGACAAAATAATTAACGTTTTAAATGTTACTTAAATTGCAGTATTGG
CTATTGTTTTGGTTGGTTTGCTGTATGGATTCTTCATAGCTATAATATGTGGGCAGAGGATCAC
AGAACGGCATTACCATGTTCTTGCAAAGCAAGAGTTAACCAAG
						
					

			
		

Sequences
Splice junction sequence	TTTGGTTGGTTTGCTGTATGGATTCTTCATAGCTATAATATGTGGGCAGAGGATCACAGAACGG CATTACCATGTTCTTGCAAAGCAAGAGTTAACCAAGgatttaatttcaacacatgactggtgaa atgtttgcttgatgatgtccggacatgatttcagtattgttcataatgcagttggcatctcatg ccactcaa
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: 778 Transcript exons: 1681448-1681776,1681910-1681995,1682117-1682263,1682669- 1682771,1683490-1683602 GATTTAATTTCAACACATGACTGGTGAAATGTTTGCTTGATGATGTCCGGACATGATTTCAGTA TTGTTCATAATGCAGTTGGCATCTCATGCCACTCAAGCAGATGAAGCAACAGAGCTTGCTTCCA GCTGTGATTGTGCAGAAGTGCCAGCTTCACAGCAGATAGTTTCTGAATCAAGTACAGCAGGAAG CTCCACAGAGCATCTAGTTTCATGTGAAATCAAGCCACTGGGTGTTGATGAAGACATTGAAACT ATTGATGCTAACGAAGAAACCCACCTTGTCATTCAAGACTGTCCACAATGCCGGATTTGCCTTG ATAATGAAGGTGATGACTTGATTGCACCTTGTCATTGCAAGGGCACACAGAAATACGTGCATCG ATCCTGTCTTGATAACTGGAGATCAACAAAGGAAGGTTTTGCCTTTTCACATTGCACTGAGTGT CGGGCTGCCTTCTTACTTCGTGCAAATGTTCCTCCAGATCGATGGTGGTTGAGATTGAAGTTTC AACTTCTGGTTGTTAGAGATCACACGTTGATTTTTTTTATTGTACAACTGGTTGTTGCTTTATT GGGTATGCTAGTATACAGATTTTATGGAGATGAACTACGAGAAATGTTTGGTTATGAAGAGCAT CCATATGCTTTTTATGCAATGGCAATATTGGCTATTGTTTTGGTTGGTTTGCTGTATGGATTCT TCATAGCTATAATATGTGGGCAGAGGATCACAGAACGGCATTACCATGTTCTTGCAAAGCAAGA GTTAACCAAG
Genomic sequence	GATTTAATTTCAACACATGACTGGTGAAATGTTTGCTTGATGATGTCCGGACATGATTTCAGTA TTGTTCATAATGCAGTTGGCATCTCATGCCACTCAAGCAGATGAAGCAACAGAGCTTGCTTCCA GCTGTGATTGTGCAGAAGTGCCAGCTTCACAGCAGATAGTTTCTGAATCAAGTACAGCAGGAAG CTCCACAGAGCATCTAGTTTCATGTGAAATCAAGCCACTGGGTGTTGATGAAGACATTGAAACT ATTGATGCTAACGAAGAAACCCACCTTGTCATTCAAGACTGTCCACAATGCCGGATTTGCCTTG ATAATGAAGGTCCATTCTGTGACTTGAAGTATCTTTCTTATGGAGTGCCATAAAGGCTTTCGAT TTTTTTTTTGATAATATTCATATTTTTATGTTGAGTCTACATTTGATCTGATATTTTTTCCATA TCCACTACAAGCAGGTGATGACTTGATTGCACCTTGTCATTGCAAGGGCACACAGAAATACGTG CATCGATCCTGTCTTGATAACTGGAGATCAACAAAGGTGGATTCATGAACATTTGCTCTTTATG CTTCATGTACCTATATTTACTGCCATCGCAGAATCCAGTTAATCATTAACCTAATCCAGCTCTG ACCTAGTTTCTATGTTACATTTCCACCAGGAAGGTTTTGCCTTTTCACATTGCACTGAGTGTCG GGCTGCCTTCTTACTTCGTGCAAATGTTCCTCCAGATCGATGGTGGTTGAGATTGAAGTTTCAA CTTCTGGTTGTTAGAGATCACACGTTGATTTTTTTTATTGTACAACTGGTACGAGTTCCACACC TTCTGTAATCTAATTCAACAAACTGTTTTTTCTTTACTGAACCAATACTGAATACATCTCAGTA GGATTTCTCCAACTGTTTACCCTAAAAAATGAACATGCTACAATACTGAACTCAAGCATGACAT GGTTGCACCTTATTCTGTTAATGTATAAAGCAGTAATGATTTTATGGATTTATATTGATATCAC CATTTCTTTGAAGAGATGTGGTAGTTAGTTCACTGACTTCTTACTAATACATTGCCATGATTTC TGGCGTGAGATCCAAAAGATAAACGTTTTTGAATAAATGCACAAGAAAGAGGCCTGAAAATGGT CACGATGTGCTGCTGTAAGATGCATCTTTGTTTTTGTCTTACAATCTTATCCGTTTTCCTGCCT GATAGGTTGTTGCTTTATTGGGTATGCTAGTATACAGATTTTATGGAGATGAACTACGAGAAAT GTTTGGTTATGAAGAGCATCCATATGCTTTTTATGCAATGGCAAGTAAGTTACTTTTTCATAGT GATATCTGGAAATGTCATGAACTGCATCTTATCTAGAAAGCTCATAGAGAACTGAAAAACTTAT CGTTTTCTTGTGTAGCATCTGTTCATGTTGATCCAGTTCATGACATGTACTGTCAACATGGCCT GGCATTTATGTCTCTAAAGAAAGTCACTCCATTCTATTACATCTTTCATTTCATACTTATAGCT ACCATTTAAAAATATGGTGTGGAACCAAAGTACAGTGCAATTTATGTAGAATTGCTTTTATGTA TTGTGAAGATCATCGCGCAGTTTATAATGGCAGCTATAGCTTTGGGCCTTTGAGATGAAAGATA ACATATACTACACTTAATGTTGGGCGTCCATGATTATCTAAGTGCTCTCTATGTAAATGGAATC ACGGAAGATGCTTTTCAGAGGGATTTGTTTCCATGGTTCTTTTAGAAGACTGCACGAATTGTAA CATAGTCAAAACAAAAGTCTATGTGGTCAGAGGGAACTAAAAGCAACTGGCAGATTAGATGAGA ACGCCGATAGCACATATCTCCTTTGTTGGCATTTAACTCAATGCATGTGATTGCACAGGTCTTG ATGTACATATTTTTGCCCTGTGAATGTTGTCTGTGTACAGGAATAAGAACTATATCCTCTACTT CTACGTTAAAAACTTGTTGACAAAATAATTAACGTTTTAAATGTTACTTAAATTGCAGTATTGG CTATTGTTTTGGTTGGTTTGCTGTATGGATTCTTCATAGCTATAATATGTGGGCAGAGGATCAC AGAACGGCATTACCATGTTCTTGCAAAGCAAGAGTTAACCAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.243888237

Conservation Information
Conserved circRNAs	NA
PMCS	0.243888237

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							1683543-1681464(+)
1681501-1681471(+)
						
						Potential amino acid sequence
						
							MWAEDHRTALPCSCKARVNQGFNFNT*(+)
MISVLFIMQLASHATQADEATELASSCDCAEVPASQQIVSESSTAGSSTEHLVSCEIKPLGVDE
DIETIDANEETHLVIQDCPQCRICLDNEGDDLIAPCHCKGTQKYVHRSCLDNWRSTKEGFAFSH
CTECRAAFLLRANVPPDRWWLRLKFQLLVVRDHTLIFFIVQLVVALLGMLVYRFYGDELREMFG
YEEHPYAFYAMAILAIVLVGLLYGFFIAIICGQRITERHYHVLAKQELTKDLISTHDW*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	1683543-1681464(+) 1681501-1681471(+)
Potential amino acid sequence	MWAEDHRTALPCSCKARVNQGFNFNT(+) MISVLFIMQLASHATQADEATELASSCDCAEVPASQQIVSESSTAGSSTEHLVSCEIKPLGVDE DIETIDANEETHLVIQDCPQCRICLDNEGDDLIAPCHCKGTQKYVHRSCLDNWRSTKEGFAFSH CTECRAAFLLRANVPPDRWWLRLKFQLLVVRDHTLIFFIVQLVVALLGMLVYRFYGDELREMFG YEEHPYAFYAMAILAIVLVGLLYGFFIAIICGQRITERHYHVLAKQELTKDLISTHDW(+)
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 Os02g0132300_circ_g.4

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