Plant Circular RNA Database

Detail information of Os01g0944200_circ_g.4

			
						 General Information
					
						CircRNA Name
						Os01g0944200_circ_g.4
					
						ID in PlantcircBase
						osa_circ_005783
					
						Alias
						Os_ciR1004
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr1: 41510306-41517984  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Os01g0944200						
					
						Parent gene annotation
						
							Ribonuclease H-like domain containing protein. (Os01t0944200-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os01g0944200_circ_g.1 Os01g0944200_circ_g.2 Os01g0944200_circ_g.3 Os01g0944200_circ_g.5 Os01g0944200_circ_g.6 Os01g0944200_circ_igg.1 Os01g0944200_circ_g.2 Os01g0944200_circ_g.3 Os01g0944200_circ_g.4 Os01g0944200_circ_g.5 Os01g0944200_circ_g.6 Os01g0944200_circ_g.7 Os01g0944200_circ_g.8 Os01g0944200_circ_g.9 Os01g0944200_circ_g.10 Os01g0944200_circ_g.11 Os01g0944200_circ_g.12 Os01g0944200_circ_g.13 						
					
						Support reads
						28
					
						Tissues
						root
					
						Exon boundary  
						
							No-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
						Os01t0944200-01:4

General Information
CircRNA Name	Os01g0944200_circ_g.4
ID in PlantcircBase	osa_circ_005783
Alias	Os_ciR1004
Organism	Oryza sativa
Position	chr1: 41510306-41517984 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	find_circ
Parent gene	Os01g0944200
Parent gene annotation	Ribonuclease H-like domain containing protein. (Os01t0944200-01)
Parent gene strand	+
Alternative splicing	Os01g0944200_circ_g.1 Os01g0944200_circ_g.2 Os01g0944200_circ_g.3 Os01g0944200_circ_g.5 Os01g0944200_circ_g.6 Os01g0944200_circ_igg.1 Os01g0944200_circ_g.2 Os01g0944200_circ_g.3 Os01g0944200_circ_g.4 Os01g0944200_circ_g.5 Os01g0944200_circ_g.6 Os01g0944200_circ_g.7 Os01g0944200_circ_g.8 Os01g0944200_circ_g.9 Os01g0944200_circ_g.10 Os01g0944200_circ_g.11 Os01g0944200_circ_g.12 Os01g0944200_circ_g.13
Support reads	28
Tissues	root
Exon boundary	No-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	Os01t0944200-01:4

			
						 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  
						
							AGGAATAGATTGGTACTCAGTATACTGGAAAAAACAGTTCCAATTCTTAGTCAGCCGCAGTTCA
GGATATCATGGAGCAGCTATCTGCGAACAATTTTTGgctgcgtgtgcgcggaggaaaggaatct
ttatggagccaaaatttcgcagagataggaatggaatccttacgaagccaaaatttcgcagaga
ggaggata

									
								

					

						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: 383
Transcript exons: 41510306-41510443,41517740-41517984
GCTGCGTGTGCGCGGAGGAAAGGAATCTTTATGGAGCCAAAATTTCGCAGAGATAGGAATGGAA
TCCTTACGAAGCCAAAATTTCGCAGAGAGGAGGATATCTGTTTGAGGAAAAAAAGGACGGGGTC
TCCCTTCCTGGGTTGATGATCCCAACAGGTCGCTGTTTCTGTTTCTGAGGAGTTTGAGAGGTCG
CTTTGAGTCCTTGACCCCGGTCTGGAAACCCAGAGAACTACTGCTGATCCCAGATCGTCTGGTT
AGTATGGTTGATGACCCCCTGATATCAAGGAATAGATTGGTACTCAGTATACTGGAAAAAACAG
TTCCAATTCTTAGTCAGCCGCAGTTCAGGATATCATGGAGCAGCTATCTGCGAACAATTTTTG
Transcript length: 407
Transcript exons: 41510306-41510380,41513013-41513079,41516946-41517000,41
517738-41517871,41517909-41517984
GCTGCGTGTGCGCGGAGGAAAGGAATCTTTATGGAGCCAAAATTTCGCAGAGATAGGAATGGAA
TCCTTACGAAGGTACAGAGGCAGTAATATATCCCTACTTCTCTTAAATAAATTTGCTCTGTTTT
TGCTGTGTTCTTTTCTGATTTGTGCTGTTATTTTCATGCTCGTTTTGGCTGTTTGGTGATGGTG
TTTTTAAGGTTGATGATCCCAACAGGTCGCTGTTTCTGTTTCTGAGGAGTTTGAGAGGTCGCTT
TGAGTCCTTGACCCCGGTCTGGAAACCCAGAGAACTACTGCTGATCCCAGATCGTCTGGTTAGT
ATGGTTGATGACTGGAAAAAACAGTTCCAATTCTTAGTCAGCCGCAGTTCAGGATATCATGGAG
CAGCTATCTGCGAACAATTTTTG
Transcript length: 442
Transcript exons: 41510306-41510341,41512823-41512956,41512967-41513013,41
517760-41517984
GCTGCGTGTGCGCGGAGGAAAGGAATCTTTATGGAGGGGGCCGGTGGGCAAGGCGTCACTTATT
TGCGGAGGAAAGGAAACCCATGATGCCAAAATTTTGCAGATAGGAGATGGAGGAGATTCAGTTC
ATTGTGTGCAAAAAAGACGACTGATCTCCCCCTGCAAATGTGGCCTATGATTGGTATTACAACT
CGTATTGATGAGCACTACACCATGGCGCTGTTTCTGTTTCTGAGGAGTTTGAGAGGTCGCTTTG
AGTCCTTGACCCCGGTCTGGAAACCCAGAGAACTACTGCTGATCCCAGATCGTCTGGTTAGTAT
GGTTGATGACCCCCTGATATCAAGGAATAGATTGGTACTCAGTATACTGGAAAAAACAGTTCCA
ATTCTTAGTCAGCCGCAGTTCAGGATATCATGGAGCAGCTATCTGCGAACAATTTTTG
Transcript length: 444
Transcript exons: 41510306-41510418,41512928-41513013,41517740-41517984
GCTGCGTGTGCGCGGAGGAAAGGAATCTTTATGGAGCCAAAATTTCGCAGAGATAGGAATGGAA
TCCTTACGAAGCCAAAATTTCGCAGAGAGGAGGATATCTGTTTGAGGAAAAGACGACTGATCTC
CCCCTGCAAATGTGTACGGAGGAAGCCTATGATTGGTATTACAACTCGTATTGATGAGCACTAC
ACCATGGGGTTGATGATCCCAACAGGTCGCTGTTTCTGTTTCTGAGGAGTTTGAGAGGTCGCTT
TGAGTCCTTGACCCCGGTCTGGAAACCCAGAGAACTACTGCTGATCCCAGATCGTCTGGTTAGT
ATGGTTGATGACCCCCTGATATCAAGGAATAGATTGGTACTCAGTATACTGGAAAAAACAGTTC
CAATTCTTAGTCAGCCGCAGTTCAGGATATCATGGAGCAGCTATCTGCGAACAATTTTTG
Transcript length: 463
Transcript exons: 41510306-41510362,41511115-41511174,41512877-41513013,41
517024-41517064,41517817-41517984
GCTGCGTGTGCGCGGAGGAAAGGAATCTTTATGGAGCCAAAATTTCGCAGAGATAGGTGATGTT
ACCGTTTGATGTGACGTACCTTAGTTTGTACGCGAGATTCAACAAGATGAAGGCAAAATTTTGC
AGATAGGAGATGGAGGAGATTCAGTTCATTGTGTGCAAAAAAGACGACTGATCTCCCCCTGCAA
ATGTGTACGGAGGAAGCCTATGATTGGTATTACAACTCGTATTGATGAGCACTACACCATGGGG
TGTTTTTCGAGATCCCGGCGAGCGTGGATTCAGCACAAGGGAAACCCAGAGAACTACTGCTGAT
CCCAGATCGTCTGGTTAGTATGGTTGATGACCCCCTGATATCAAGGAATAGATTGGTACTCAGT
ATACTGGAAAAAACAGTTCCAATTCTTAGTCAGCCGCAGTTCAGGATATCATGGAGCAGCTATC
TGCGAACAATTTTTG
Transcript length: 487
Transcript exons: 41510306-41510410,41513013-41513076,41516928-41517000,41
517740-41517984
GCTGCGTGTGCGCGGAGGAAAGGAATCTTTATGGAGCCAAAATTTCGCAGAGATAGGAATGGAA
TCCTTACGAAGCCAAAATTTCGCAGAGAGGAGGATATCTGTGTACAGAGGCAGTAATATATCCC
TACTTCTCTTAAATAAATTTGCTCTGTTTTTGCTGTGTTCTGTAGATTATCCCCTGCTGCTGAT
TTGTGCTGTTATTTTCATGCTCGTTTTGGCTGTTTGGTGATGGTGTTTTTGGTTGATGATCCCA
ACAGGTCGCTGTTTCTGTTTCTGAGGAGTTTGAGAGGTCGCTTTGAGTCCTTGACCCCGGTCTG
GAAACCCAGAGAACTACTGCTGATCCCAGATCGTCTGGTTAGTATGGTTGATGACCCCCTGATA
TCAAGGAATAGATTGGTACTCAGTATACTGGAAAAAACAGTTCCAATTCTTAGTCAGCCGCAGT
TCAGGATATCATGGAGCAGCTATCTGCGAACAATTTTTG
Transcript length: 512
Transcript exons: 41510306-41510417,41512825-41512925,41512935-41513013,41
517765-41517984
GCTGCGTGTGCGCGGAGGAAAGGAATCTTTATGGAGCCAAAATTTCGCAGAGATAGGAATGGAA
TCCTTACGAAGCCAAAATTTCGCAGAGAGGAGGATATCTGTTTGAGGAGGCCGGTGGGCAAGGC
GTCACTTATTTGCGGAGGAAAGGAAACCCATGATGCCAAAATTTTGCAGATAGGAGATGGAGGA
GATTCAGTTCATTGTGTGCAACTGATCTCCCCCTGCAAATGTGTACGGAGGAAGCCTATGATTG
GTATTACAACTCGTATTGATGAGCACTACACCATGGTTTCTGTTTCTGAGGAGTTTGAGAGGTC
GCTTTGAGTCCTTGACCCCGGTCTGGAAACCCAGAGAACTACTGCTGATCCCAGATCGTCTGGT
TAGTATGGTTGATGACCCCCTGATATCAAGGAATAGATTGGTACTCAGTATACTGGAAAAAACA
GTTCCAATTCTTAGTCAGCCGCAGTTCAGGATATCATGGAGCAGCTATCTGCGAACAATTTTTG
						
					

						Genomic sequence
						
							TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.						
					

			
		

Sequences
Splice junction sequence	AGGAATAGATTGGTACTCAGTATACTGGAAAAAACAGTTCCAATTCTTAGTCAGCCGCAGTTCA GGATATCATGGAGCAGCTATCTGCGAACAATTTTTGgctgcgtgtgcgcggaggaaaggaatct ttatggagccaaaatttcgcagagataggaatggaatccttacgaagccaaaatttcgcagaga ggaggata
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: 383 Transcript exons: 41510306-41510443,41517740-41517984 GCTGCGTGTGCGCGGAGGAAAGGAATCTTTATGGAGCCAAAATTTCGCAGAGATAGGAATGGAA TCCTTACGAAGCCAAAATTTCGCAGAGAGGAGGATATCTGTTTGAGGAAAAAAAGGACGGGGTC TCCCTTCCTGGGTTGATGATCCCAACAGGTCGCTGTTTCTGTTTCTGAGGAGTTTGAGAGGTCG CTTTGAGTCCTTGACCCCGGTCTGGAAACCCAGAGAACTACTGCTGATCCCAGATCGTCTGGTT AGTATGGTTGATGACCCCCTGATATCAAGGAATAGATTGGTACTCAGTATACTGGAAAAAACAG TTCCAATTCTTAGTCAGCCGCAGTTCAGGATATCATGGAGCAGCTATCTGCGAACAATTTTTG Transcript length: 407 Transcript exons: 41510306-41510380,41513013-41513079,41516946-41517000,41 517738-41517871,41517909-41517984 GCTGCGTGTGCGCGGAGGAAAGGAATCTTTATGGAGCCAAAATTTCGCAGAGATAGGAATGGAA TCCTTACGAAGGTACAGAGGCAGTAATATATCCCTACTTCTCTTAAATAAATTTGCTCTGTTTT TGCTGTGTTCTTTTCTGATTTGTGCTGTTATTTTCATGCTCGTTTTGGCTGTTTGGTGATGGTG TTTTTAAGGTTGATGATCCCAACAGGTCGCTGTTTCTGTTTCTGAGGAGTTTGAGAGGTCGCTT TGAGTCCTTGACCCCGGTCTGGAAACCCAGAGAACTACTGCTGATCCCAGATCGTCTGGTTAGT ATGGTTGATGACTGGAAAAAACAGTTCCAATTCTTAGTCAGCCGCAGTTCAGGATATCATGGAG CAGCTATCTGCGAACAATTTTTG Transcript length: 442 Transcript exons: 41510306-41510341,41512823-41512956,41512967-41513013,41 517760-41517984 GCTGCGTGTGCGCGGAGGAAAGGAATCTTTATGGAGGGGGCCGGTGGGCAAGGCGTCACTTATT TGCGGAGGAAAGGAAACCCATGATGCCAAAATTTTGCAGATAGGAGATGGAGGAGATTCAGTTC ATTGTGTGCAAAAAAGACGACTGATCTCCCCCTGCAAATGTGGCCTATGATTGGTATTACAACT CGTATTGATGAGCACTACACCATGGCGCTGTTTCTGTTTCTGAGGAGTTTGAGAGGTCGCTTTG AGTCCTTGACCCCGGTCTGGAAACCCAGAGAACTACTGCTGATCCCAGATCGTCTGGTTAGTAT GGTTGATGACCCCCTGATATCAAGGAATAGATTGGTACTCAGTATACTGGAAAAAACAGTTCCA ATTCTTAGTCAGCCGCAGTTCAGGATATCATGGAGCAGCTATCTGCGAACAATTTTTG Transcript length: 444 Transcript exons: 41510306-41510418,41512928-41513013,41517740-41517984 GCTGCGTGTGCGCGGAGGAAAGGAATCTTTATGGAGCCAAAATTTCGCAGAGATAGGAATGGAA TCCTTACGAAGCCAAAATTTCGCAGAGAGGAGGATATCTGTTTGAGGAAAAGACGACTGATCTC CCCCTGCAAATGTGTACGGAGGAAGCCTATGATTGGTATTACAACTCGTATTGATGAGCACTAC ACCATGGGGTTGATGATCCCAACAGGTCGCTGTTTCTGTTTCTGAGGAGTTTGAGAGGTCGCTT TGAGTCCTTGACCCCGGTCTGGAAACCCAGAGAACTACTGCTGATCCCAGATCGTCTGGTTAGT ATGGTTGATGACCCCCTGATATCAAGGAATAGATTGGTACTCAGTATACTGGAAAAAACAGTTC CAATTCTTAGTCAGCCGCAGTTCAGGATATCATGGAGCAGCTATCTGCGAACAATTTTTG Transcript length: 463 Transcript exons: 41510306-41510362,41511115-41511174,41512877-41513013,41 517024-41517064,41517817-41517984 GCTGCGTGTGCGCGGAGGAAAGGAATCTTTATGGAGCCAAAATTTCGCAGAGATAGGTGATGTT ACCGTTTGATGTGACGTACCTTAGTTTGTACGCGAGATTCAACAAGATGAAGGCAAAATTTTGC AGATAGGAGATGGAGGAGATTCAGTTCATTGTGTGCAAAAAAGACGACTGATCTCCCCCTGCAA ATGTGTACGGAGGAAGCCTATGATTGGTATTACAACTCGTATTGATGAGCACTACACCATGGGG TGTTTTTCGAGATCCCGGCGAGCGTGGATTCAGCACAAGGGAAACCCAGAGAACTACTGCTGAT CCCAGATCGTCTGGTTAGTATGGTTGATGACCCCCTGATATCAAGGAATAGATTGGTACTCAGT ATACTGGAAAAAACAGTTCCAATTCTTAGTCAGCCGCAGTTCAGGATATCATGGAGCAGCTATC TGCGAACAATTTTTG Transcript length: 487 Transcript exons: 41510306-41510410,41513013-41513076,41516928-41517000,41 517740-41517984 GCTGCGTGTGCGCGGAGGAAAGGAATCTTTATGGAGCCAAAATTTCGCAGAGATAGGAATGGAA TCCTTACGAAGCCAAAATTTCGCAGAGAGGAGGATATCTGTGTACAGAGGCAGTAATATATCCC TACTTCTCTTAAATAAATTTGCTCTGTTTTTGCTGTGTTCTGTAGATTATCCCCTGCTGCTGAT TTGTGCTGTTATTTTCATGCTCGTTTTGGCTGTTTGGTGATGGTGTTTTTGGTTGATGATCCCA ACAGGTCGCTGTTTCTGTTTCTGAGGAGTTTGAGAGGTCGCTTTGAGTCCTTGACCCCGGTCTG GAAACCCAGAGAACTACTGCTGATCCCAGATCGTCTGGTTAGTATGGTTGATGACCCCCTGATA TCAAGGAATAGATTGGTACTCAGTATACTGGAAAAAACAGTTCCAATTCTTAGTCAGCCGCAGT TCAGGATATCATGGAGCAGCTATCTGCGAACAATTTTTG Transcript length: 512 Transcript exons: 41510306-41510417,41512825-41512925,41512935-41513013,41 517765-41517984 GCTGCGTGTGCGCGGAGGAAAGGAATCTTTATGGAGCCAAAATTTCGCAGAGATAGGAATGGAA TCCTTACGAAGCCAAAATTTCGCAGAGAGGAGGATATCTGTTTGAGGAGGCCGGTGGGCAAGGC GTCACTTATTTGCGGAGGAAAGGAAACCCATGATGCCAAAATTTTGCAGATAGGAGATGGAGGA GATTCAGTTCATTGTGTGCAACTGATCTCCCCCTGCAAATGTGTACGGAGGAAGCCTATGATTG GTATTACAACTCGTATTGATGAGCACTACACCATGGTTTCTGTTTCTGAGGAGTTTGAGAGGTC GCTTTGAGTCCTTGACCCCGGTCTGGAAACCCAGAGAACTACTGCTGATCCCAGATCGTCTGGT TAGTATGGTTGATGACCCCCTGATATCAAGGAATAGATTGGTACTCAGTATACTGGAAAAAACA GTTCCAATTCTTAGTCAGCCGCAGTTCAGGATATCATGGAGCAGCTATCTGCGAACAATTTTTG
Genomic sequence	TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.474555387

Conservation Information
Conserved circRNAs	NA
PMCS	0.474555387

			
						 Functional Information
					
						Coding potential
						N
					
						Potential coding position
						
							NA
						
						Potential amino acid sequence
						
							NA
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	N
Potential coding position	NA
Potential amino acid sequence	NA
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015

circRNA

Detail information of Os01g0944200_circ_g.4

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