Plant Circular RNA Database

Detail information of Os03g0856200_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os03g0856200_circ_g.1
					
						ID in PlantcircBase
						osa_circ_022788
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr3: 36117539-36119154  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os03g0856200						
					
						Parent gene annotation
						
							Similar to KAP-2. (Os03t0856200-01);Similar to Longin-like. (Os0
3t0856200-02);Similar to KAP-2. (Os03t0856200-03);Similar to KAP
-2. (Os03t0856200-04)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						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  
						
							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
						Os03t0856200-04:3
Os03t0856200-03:4
Os03t0856200-01:5

General Information
CircRNA Name	Os03g0856200_circ_g.1
ID in PlantcircBase	osa_circ_022788
Alias	NA
Organism	Oryza sativa
Position	chr3: 36117539-36119154 JBrowse»
Reference genome	IRGSP-1.0.38
Type	u-circRNA
Identification method	CIRCexplorer
Parent gene	Os03g0856200
Parent gene annotation	Similar to KAP-2. (Os03t0856200-01);Similar to Longin-like. (Os0 3t0856200-02);Similar to KAP-2. (Os03t0856200-03);Similar to KAP -2. (Os03t0856200-04)
Parent gene strand	+
Alternative splicing	NA
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	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	Os03t0856200-04:3 Os03t0856200-03:4 Os03t0856200-01:5

			
						 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  
						
							AGCTCTGTCAGAAATTTAGGCCGGCTGGTGATAAAATTTTTTTGCAGCTTCTTTCGTCCAAGAA
AGCTTCGCTTATAAGCAAAGAAGAAGCACCTGATAGgcactattttatgaaagatgtgttctcc
tttgttccggaaccaggaaacacaaaagcagttgctgccgtttctgccttagctagagcaatga
gtgaaatg

									
								

					

						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
						
							GCACTATTTTATGAAAGATGTGTTCTCCTTTGTTCCGGAACCAGGAAACACAAAAGCAGTTGCT
GCCGTTTCTGCCTTAGCTAGAGCAATGAGTGAAATGAACAAGGTTGCAATTTTACGATGCGTGT
GGAGGCAAGGTCAAGGGAATGTTGCTTTGGGTGTATTGACACCAAACATATCATCAGCAAAAAA
TGTTGTATGTACTTTATTTACTCACACCTTATACCTGTAGGATTCGTCTGATGATTGCATATGT
TCAAGCAATTCTTTTTTTTTCCTTTTCCCTGCAGCTGGATTCCTTTTACTTCAATATACTTCCA
TTTGCTGAGGACATCAGAGAGTTTCAGTTTCGGTCCTTCAGCAGCCTGCCATCATCATCTCAGC
CTACCAAGGAACAGCAGGAAGCTGCAGATAACCTGGTAAAGATGTTAGATCTTGCACCACCTGG
AAGGGAAGAGATCCTTAAGCCTGATTTCACTCCGAATCCCATGTTGGAGGTGCTATTCTTCCTT
CAGAATATTGCTATTTATCAAAACCAATTTAGATATTCTGATATTTTTTTCTCATATTATATAC
CTTAAGCTATTTTTCCTCTTCTTTTCACTTTTTCATTGGAGTATGCTCTGCAAAGGTTCTTGTA
TGTATTTGTTTTGCTTCTAAGTTTACTAATAGGTTCTAGATCACTTGACATTTTTCTTTTAATG
CTCCTTTTGTGCATATTCTTTATTCTGTTGACTAAGGTTCACTTGCCACTTCCCCCTTTAGAGA
TTCTACAGGTACCTTGATCTCAAGTCAAAGCAGCCGGATGCAAATGTCCCACCCCTCGACAAAT
GTCTAAAGAAGATAACTGAACCTGATCCTGATGTCATTGATTATCAAGCACCGCTAATAAAAAA
ATTAGGCAATGTATTTGAGCTGAAGGAGAACCCCAAGGTTAGAAATATTGCTAACGTATTTGTG
TTATTGACTTGATACTGTAATTTTGGGGAACCATAAATCTGTTTGGACTGATCACAGAAAAAGA
AAGCACGGACACAGGACAGATTGACTTATACTGGCGCAGACGATCAGGCTAAATTATTAGAAGA
ACCTTCTGCAGAGAAGGTTGGGGTTTCGGAAGCTTTATATCCTCCAAAAAAGAAGGCTGGGGAG
ATTGGCGATCATAATCCTGTTCAAGATTTTGAAGCCATGCTGACACAGAGATCTAGCTCAACGT
GGGTTCAGACGGCAATTGAAGAGATGCAGAAGTACATAACCGCTTTAATACAGGATTCCTGTGA
TCGGGATAATCACCAAAAGGCACTGGAGTGCCTTGTTGCTTTACGGAAGGCCTGCATTATTGAA
CAGGTAATCTCTCCTATGGTTATTTTCATTTGATTGCATGGTAGTTAGATGTAATCCATGCCCC
TTATTTTGCTGCGAGACCTCATGTATAGTTTAAACATGCTTGCTCAGTTGTAACTTAGGTGTTG
TTTTCCATTATAGGAACCAAACGAATACAATGGATTCGTAACAAAGCTCTGTCAGAAATTTAGG
CCGGCTGGTGATAAAATTTTTTTGCAGCTTCTTTCGTCCAAGAAAGCTTCGCTTATAAGCAAAG
AAGAAGCACCTGATAG
						
					

			
		

Sequences
Splice junction sequence	AGCTCTGTCAGAAATTTAGGCCGGCTGGTGATAAAATTTTTTTGCAGCTTCTTTCGTCCAAGAA AGCTTCGCTTATAAGCAAAGAAGAAGCACCTGATAGgcactattttatgaaagatgtgttctcc tttgttccggaaccaggaaacacaaaagcagttgctgccgtttctgccttagctagagcaatga gtgaaatg
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	GCACTATTTTATGAAAGATGTGTTCTCCTTTGTTCCGGAACCAGGAAACACAAAAGCAGTTGCT GCCGTTTCTGCCTTAGCTAGAGCAATGAGTGAAATGAACAAGGTTGCAATTTTACGATGCGTGT GGAGGCAAGGTCAAGGGAATGTTGCTTTGGGTGTATTGACACCAAACATATCATCAGCAAAAAA TGTTGTATGTACTTTATTTACTCACACCTTATACCTGTAGGATTCGTCTGATGATTGCATATGT TCAAGCAATTCTTTTTTTTTCCTTTTCCCTGCAGCTGGATTCCTTTTACTTCAATATACTTCCA TTTGCTGAGGACATCAGAGAGTTTCAGTTTCGGTCCTTCAGCAGCCTGCCATCATCATCTCAGC CTACCAAGGAACAGCAGGAAGCTGCAGATAACCTGGTAAAGATGTTAGATCTTGCACCACCTGG AAGGGAAGAGATCCTTAAGCCTGATTTCACTCCGAATCCCATGTTGGAGGTGCTATTCTTCCTT CAGAATATTGCTATTTATCAAAACCAATTTAGATATTCTGATATTTTTTTCTCATATTATATAC CTTAAGCTATTTTTCCTCTTCTTTTCACTTTTTCATTGGAGTATGCTCTGCAAAGGTTCTTGTA TGTATTTGTTTTGCTTCTAAGTTTACTAATAGGTTCTAGATCACTTGACATTTTTCTTTTAATG CTCCTTTTGTGCATATTCTTTATTCTGTTGACTAAGGTTCACTTGCCACTTCCCCCTTTAGAGA TTCTACAGGTACCTTGATCTCAAGTCAAAGCAGCCGGATGCAAATGTCCCACCCCTCGACAAAT GTCTAAAGAAGATAACTGAACCTGATCCTGATGTCATTGATTATCAAGCACCGCTAATAAAAAA ATTAGGCAATGTATTTGAGCTGAAGGAGAACCCCAAGGTTAGAAATATTGCTAACGTATTTGTG TTATTGACTTGATACTGTAATTTTGGGGAACCATAAATCTGTTTGGACTGATCACAGAAAAAGA AAGCACGGACACAGGACAGATTGACTTATACTGGCGCAGACGATCAGGCTAAATTATTAGAAGA ACCTTCTGCAGAGAAGGTTGGGGTTTCGGAAGCTTTATATCCTCCAAAAAAGAAGGCTGGGGAG ATTGGCGATCATAATCCTGTTCAAGATTTTGAAGCCATGCTGACACAGAGATCTAGCTCAACGT GGGTTCAGACGGCAATTGAAGAGATGCAGAAGTACATAACCGCTTTAATACAGGATTCCTGTGA TCGGGATAATCACCAAAAGGCACTGGAGTGCCTTGTTGCTTTACGGAAGGCCTGCATTATTGAA CAGGTAATCTCTCCTATGGTTATTTTCATTTGATTGCATGGTAGTTAGATGTAATCCATGCCCC TTATTTTGCTGCGAGACCTCATGTATAGTTTAAACATGCTTGCTCAGTTGTAACTTAGGTGTTG TTTTCCATTATAGGAACCAAACGAATACAATGGATTCGTAACAAAGCTCTGTCAGAAATTTAGG CCGGCTGGTGATAAAATTTTTTTGCAGCTTCTTTCGTCCAAGAAAGCTTCGCTTATAAGCAAAG AAGAAGCACCTGATAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.155587613

Conservation Information
Conserved circRNAs	NA
PMCS	0.155587613

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							36118728-36118320(+)
						
						Potential amino acid sequence
						
							MLTQRSSSTWVQTAIEEMQKYITALIQDSCDRDNHQKALECLVALRKACIIEQEPNEYNGFVTK
LCQKFRPAGDKIFLQLLSSKKASLISKEEAPDRHYFMKDVFSFVPEPGNTKAVAAVSALARAMS
EMNKVAILRCVWRQGQGNVALGVLTPNISSAKNVLDSFYFNILPFAEDIREFQFRSFSSLPSSS
QPTKEQQEAADNLVKMLDLAPPGREEILKPDFTPNPMLEVP*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	36118728-36118320(+)
Potential amino acid sequence	MLTQRSSSTWVQTAIEEMQKYITALIQDSCDRDNHQKALECLVALRKACIIEQEPNEYNGFVTK LCQKFRPAGDKIFLQLLSSKKASLISKEEAPDRHYFMKDVFSFVPEPGNTKAVAAVSALARAMS EMNKVAILRCVWRQGQGNVALGVLTPNISSAKNVLDSFYFNILPFAEDIREFQFRSFSSLPSSS QPTKEQQEAADNLVKMLDLAPPGREEILKPDFTPNPMLEVP*(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os03g0856200_circ_g.1

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