Plant Circular RNA Database

Detail information of BGIOSGA008907_circ_igg.3

			
						 General Information
					
						CircRNA Name
						BGIOSGA008907_circ_igg.3
					
						ID in PlantcircBase
						osi_circ_004216
					
						Alias
						2:31318630|31322088
					
						Organism
						
							Oryza sativa ssp. indica						
					
						Position
						
							chr2: 31318630-31322088  JBrowse»						
					
						Reference genome
						
							Oryza_indica.ASM465v1.42						
					
						Type  
						
							igg-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							NA						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						NA
					
						Alternative splicing
						
							BGIOSGA008907_circ_igg.1 BGIOSGA008907_circ_igg.2 BGIOSGA008907_circ_g.1 BGIOSGA008907_circ_igg.2 BGIOSGA008907_circ_igg.3 						
					
						Support reads
						NA
					
						Tissues
						leaf
					
						Exon boundary  
						
							NA-NA							"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
						NA

General Information
CircRNA Name	BGIOSGA008907_circ_igg.3
ID in PlantcircBase	osi_circ_004216
Alias	2:31318630\|31322088
Organism	Oryza sativa ssp. indica
Position	chr2: 31318630-31322088 JBrowse»
Reference genome	Oryza_indica.ASM465v1.42
Type	igg-circRNA
Identification method	find_circ
Parent gene	NA
Parent gene annotation	NA
Parent gene strand	NA
Alternative splicing	BGIOSGA008907_circ_igg.1 BGIOSGA008907_circ_igg.2 BGIOSGA008907_circ_g.1 BGIOSGA008907_circ_igg.2 BGIOSGA008907_circ_igg.3
Support reads	NA
Tissues	leaf
Exon boundary	NA-NA "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	NA

			
						 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  
						
							GTGATCTTTACTGAGCAGACAGTGCAGTGAGAGTGTGACACTGAACAGCGTTGTAGTGCTCATT
GGGCAAAGCTTTTGCATTCTGGCTTGTGCGGTGCAGccttctttctttgacagggtgatgttgg
ttgtggtaaaaccgtagttgctttccttgcatgcatggaggtcattagctcaggatttcaggta
tctatact

									
								

					

						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
						
							CCTTCTTTCTTTGACAGGGTGATGTTGGTTGTGGTAAAACCGTAGTTGCTTTCCTTGCATGCAT
GGAGGTCATTAGCTCAGGATTTCAGGTATCTATACTACAAACCAACATCCTTGCCTTATGTACT
GTATATAAAAGGATTTTATCAACTAAAAGGACAGCTTACTGAAGCAAACTAGATGCTTAATCCA
AATAGGATATACACGAAAAATGATTATCTTCCTCCTAGTGGTACTCTTCAGTTCTTCATTAATG
AGATGTTAGTCTAACATATACCTTGTAAAATTATTTCTAGGCTGCTTTCATGGTTCCAACGGAG
GTTCTTGCCCTCCAGCATTATGAACATCTAACTTCATTGCTGGAGAAGTTTGATGGAGATGAAT
GCAAACCAAACATTGCTTTACTAACTGGTTCAACTTCCACGAGGGAATCAAGGATTATTCGAAA
TGCAAGCATTCTTTCTAGACTCTCAAGTTCCCATACGCATAGATTCATATATTTATGTGTTATT
GTTATTCTATGGCAGGGTCTCAAGACAGGAGAAATAGCAATGGTCATTGGAACACACAGCTTAA
TTGGTGATAAAACCGAATTCTCAGCTTTGCGCATCTCTGTTATAGATGAGCAGCAGCGCTTTGG
TGTTGTTCAAAGAGGAAGGTTTAATAGTAAGGTAATTTGCTGAGCATTTGCTATTTACATTGAA
TAAAAACCATACACGTCCTTTTTGACTGTTACTTTTTTTGCGGGGACTTTTTGACTGTTACTTT
GCTCCTGCATTGTCACTCATTCTGTAAACCTTGTTGTTGAATAAAATCACACACATCCTTCGTT
TACTTACTTTGCTCCAGGATTGTCGCCCATTCTGTAAACTTTGTTGGCAAACTTAGAAAGAAAA
TTGCTAATTACTACTCCTTCCATCCTAAAACATAGCAGCTTTTAGTGTTCAAAATTTGTCCCAA
AACATAGCAACTTCTCCATGTACTTCATCATCTGAACCAATCACAACCATCTCTCATTTAATTT
CTCCACCTACTTCCTCATCAAAACCAATCCTAACCATCTCTCATTTAATTTCACCTCTCTCCTT
AATCTCCATGAAAAACTCTAGAAGTGCTTATATTTTGGGGCTTAGGGAGTAAGAAGTATGCCTC
TGGATTTCCATGTTCGTGTATCTTATTTTGTGGAAAGATGGGCCAGAGCGTTCCTACTGACTTT
TTTCTTCTTTCTGTTCTTACAAACTAGCATATCACTGCAGAAAATGACCCATCATTACAATTTG
CTATTCTTGCTGTTATTACAATAGCTAGCATATCATTGCAGAAAATGATGGTAATAACGGGTTA
ATGATAATTTTATTTAATAAAAATCCCAATTCAACGGGTAATATGCTAGTGATTATATAAAATG
CTATGGTGAAAGCCTTCAAGGAGCGTGCTGTAGTTCTCAAGGCTGCCTAATTGTCCAAAACAAA
AGATAATGTATCTGGTACTTACACTTGAGTATTTGATATCCAAACCTCGTTGCATAATTCATGT
CTTTCTTATTTTGGTTTCAAATTTAACATAGTTAACATTTGTTTGTTAATACAAATTACTACCA
TTCATTACAGCTATATACCCCTTCCACGAAATCGAGTGATGATGATACAATCTCAGACGAGAAT
TCTGCTTCTGAAATATTTATGGCTCCCCATGTTCTTGCTATGTCCGCTACTCCAATCCCAAGAA
CGTTGGCTCTTGCTCTGTATGGGGACATGTCCCTTACACAGGTATTTTACAGGCTTATGGCATA
TAAGGCTTCGTTCGTTTCTTCTGTTTGGTAGTTGATTTTCTTCACACGCCAAACGAGAAAGCTC
ATTAGTACATGATTAATTAAGTTTCAACTATTATAAACTTGAAAAATGGTTTTCTTTGATTTTT
TAAACAACTCCTATATAGAAAACTTTTATAAAAACACAGCATTTAATAGTTTAAAAAACATTCT
AACAGAAAACGAGGAAGTTGAAGTTTTGAGTTGAAGAAAAGAACATAGCCTAAATTGAGTATTC
CAAATACTTACTCATTGGAAGTAAAATGTCATATCGCGTACTATGTGGGGCACAGGGTGAAAAC
TACATACATCGAGGGACTAATTCTAGGCTAGCACAATTATATCTTTAACAACTAGTAGTCCACC
CTGTTGTTTTCCAGGATCCGCTACTTTATGACTTCACATATTGGATAGGATATAGTGCAAAAAT
GTTCTTGCATTTTTCATTTTTCATGTTCCAGGACCTGTTACTTTAACAACTAGTAGGGTCTTTC
ATTTTTCACAGCTATTTCAAATCTTTACAATTGTGATCCACGTTTCTTATAGATCACGGACTTG
CCTCCAGGAAGACAACCTATAGAAACTCTTGCTCTTGAAGGAAATGATGCTGGTTTTGAATCTG
TCTTCCAGGTGATGACATGACTTCATTCAATATTTTTTCTTTTTGTTTCAGATCTTTGTTGTTT
TCCTTTTCTGTCCCAATCTGCACTTGGATATGGTTGGGATCAATTTGCTTATCATTTTTAAATA
CTTATGGCTTGAAGATGATGAGTGATGAACTGGTTGATGGAGGCAAGGTCTACCTCGTATATCC
TATCATAGAAGAATCAGAGCAGCTACCACAACTTCATGCAGCAAAAGCCGAGTTTGATTCCATA
AAGCAAAAATTTGAAGGTTATCCCTGTGGGCTTTTGCACGGTCGCATGAGGAGCGATGAGAAGG
ATGGAGCCCTCAGCAGTTTTAGATCCGGGGAAACACGTATTCTCCTCTCAACACAAGTGATTGA
GATTGGAGTCGATGTTCCTGATGCTTCCATGATGGTTGTCATGAATGCTGAGAGATTTGGAATA
TCTCAGCTGCACCAGTTAAGGGGTCGGGTAGGGCGTGGCGAAAGGAAATCCAGATGTGTGTTCC
TATGCTCCACTCCTAGCGCGCTGCCAAGGTTGAAGGTGCTTGAGAAGTCATCCGATGGATTCTA
CTTGGCTAACGCCGACCTGCTACTGCGTGGCCCTGGTGATCTACTCGGCAAGAAACAGTCAGGG
CATCTTCCAGAGTTTCCAATAGCTAGACTGGAGATTGATGGCAGTATTCTACAAGAAGCTCATC
TTGCTGCACTTGTAAGTTCATTTGCTAAACCCCAATTCGTGTTGCTATTAATGATCAGACAACT
CTTCTATCACTGTAGTATATAACTTATTTGTTCATGTTTTTAAAAGTAGCTTTTTTGTGGCAGA
ACGTTTTGGGAACAAGCAACGACCTTGCACAATTTCCAGGACTAAAAGTTGAGCTCAGCATGAG
ACAACCGCTGTGCATTCTTGGAGATTGACCTGTGATCTTTACTGAGCAGACAGTGCAGTGAGAG
TGTGACACTGAACAGCGTTGTAGTGCTCATTGGGCAAAGCTTTTGCATTCTGGCTTGTGCGGTG
CAG
						
					

			
		

Sequences
Splice junction sequence	GTGATCTTTACTGAGCAGACAGTGCAGTGAGAGTGTGACACTGAACAGCGTTGTAGTGCTCATT GGGCAAAGCTTTTGCATTCTGGCTTGTGCGGTGCAGccttctttctttgacagggtgatgttgg ttgtggtaaaaccgtagttgctttccttgcatgcatggaggtcattagctcaggatttcaggta tctatact
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	CCTTCTTTCTTTGACAGGGTGATGTTGGTTGTGGTAAAACCGTAGTTGCTTTCCTTGCATGCAT GGAGGTCATTAGCTCAGGATTTCAGGTATCTATACTACAAACCAACATCCTTGCCTTATGTACT GTATATAAAAGGATTTTATCAACTAAAAGGACAGCTTACTGAAGCAAACTAGATGCTTAATCCA AATAGGATATACACGAAAAATGATTATCTTCCTCCTAGTGGTACTCTTCAGTTCTTCATTAATG AGATGTTAGTCTAACATATACCTTGTAAAATTATTTCTAGGCTGCTTTCATGGTTCCAACGGAG GTTCTTGCCCTCCAGCATTATGAACATCTAACTTCATTGCTGGAGAAGTTTGATGGAGATGAAT GCAAACCAAACATTGCTTTACTAACTGGTTCAACTTCCACGAGGGAATCAAGGATTATTCGAAA TGCAAGCATTCTTTCTAGACTCTCAAGTTCCCATACGCATAGATTCATATATTTATGTGTTATT GTTATTCTATGGCAGGGTCTCAAGACAGGAGAAATAGCAATGGTCATTGGAACACACAGCTTAA TTGGTGATAAAACCGAATTCTCAGCTTTGCGCATCTCTGTTATAGATGAGCAGCAGCGCTTTGG TGTTGTTCAAAGAGGAAGGTTTAATAGTAAGGTAATTTGCTGAGCATTTGCTATTTACATTGAA TAAAAACCATACACGTCCTTTTTGACTGTTACTTTTTTTGCGGGGACTTTTTGACTGTTACTTT GCTCCTGCATTGTCACTCATTCTGTAAACCTTGTTGTTGAATAAAATCACACACATCCTTCGTT TACTTACTTTGCTCCAGGATTGTCGCCCATTCTGTAAACTTTGTTGGCAAACTTAGAAAGAAAA TTGCTAATTACTACTCCTTCCATCCTAAAACATAGCAGCTTTTAGTGTTCAAAATTTGTCCCAA AACATAGCAACTTCTCCATGTACTTCATCATCTGAACCAATCACAACCATCTCTCATTTAATTT CTCCACCTACTTCCTCATCAAAACCAATCCTAACCATCTCTCATTTAATTTCACCTCTCTCCTT AATCTCCATGAAAAACTCTAGAAGTGCTTATATTTTGGGGCTTAGGGAGTAAGAAGTATGCCTC TGGATTTCCATGTTCGTGTATCTTATTTTGTGGAAAGATGGGCCAGAGCGTTCCTACTGACTTT TTTCTTCTTTCTGTTCTTACAAACTAGCATATCACTGCAGAAAATGACCCATCATTACAATTTG CTATTCTTGCTGTTATTACAATAGCTAGCATATCATTGCAGAAAATGATGGTAATAACGGGTTA ATGATAATTTTATTTAATAAAAATCCCAATTCAACGGGTAATATGCTAGTGATTATATAAAATG CTATGGTGAAAGCCTTCAAGGAGCGTGCTGTAGTTCTCAAGGCTGCCTAATTGTCCAAAACAAA AGATAATGTATCTGGTACTTACACTTGAGTATTTGATATCCAAACCTCGTTGCATAATTCATGT CTTTCTTATTTTGGTTTCAAATTTAACATAGTTAACATTTGTTTGTTAATACAAATTACTACCA TTCATTACAGCTATATACCCCTTCCACGAAATCGAGTGATGATGATACAATCTCAGACGAGAAT TCTGCTTCTGAAATATTTATGGCTCCCCATGTTCTTGCTATGTCCGCTACTCCAATCCCAAGAA CGTTGGCTCTTGCTCTGTATGGGGACATGTCCCTTACACAGGTATTTTACAGGCTTATGGCATA TAAGGCTTCGTTCGTTTCTTCTGTTTGGTAGTTGATTTTCTTCACACGCCAAACGAGAAAGCTC ATTAGTACATGATTAATTAAGTTTCAACTATTATAAACTTGAAAAATGGTTTTCTTTGATTTTT TAAACAACTCCTATATAGAAAACTTTTATAAAAACACAGCATTTAATAGTTTAAAAAACATTCT AACAGAAAACGAGGAAGTTGAAGTTTTGAGTTGAAGAAAAGAACATAGCCTAAATTGAGTATTC CAAATACTTACTCATTGGAAGTAAAATGTCATATCGCGTACTATGTGGGGCACAGGGTGAAAAC TACATACATCGAGGGACTAATTCTAGGCTAGCACAATTATATCTTTAACAACTAGTAGTCCACC CTGTTGTTTTCCAGGATCCGCTACTTTATGACTTCACATATTGGATAGGATATAGTGCAAAAAT GTTCTTGCATTTTTCATTTTTCATGTTCCAGGACCTGTTACTTTAACAACTAGTAGGGTCTTTC ATTTTTCACAGCTATTTCAAATCTTTACAATTGTGATCCACGTTTCTTATAGATCACGGACTTG CCTCCAGGAAGACAACCTATAGAAACTCTTGCTCTTGAAGGAAATGATGCTGGTTTTGAATCTG TCTTCCAGGTGATGACATGACTTCATTCAATATTTTTTCTTTTTGTTTCAGATCTTTGTTGTTT TCCTTTTCTGTCCCAATCTGCACTTGGATATGGTTGGGATCAATTTGCTTATCATTTTTAAATA CTTATGGCTTGAAGATGATGAGTGATGAACTGGTTGATGGAGGCAAGGTCTACCTCGTATATCC TATCATAGAAGAATCAGAGCAGCTACCACAACTTCATGCAGCAAAAGCCGAGTTTGATTCCATA AAGCAAAAATTTGAAGGTTATCCCTGTGGGCTTTTGCACGGTCGCATGAGGAGCGATGAGAAGG ATGGAGCCCTCAGCAGTTTTAGATCCGGGGAAACACGTATTCTCCTCTCAACACAAGTGATTGA GATTGGAGTCGATGTTCCTGATGCTTCCATGATGGTTGTCATGAATGCTGAGAGATTTGGAATA TCTCAGCTGCACCAGTTAAGGGGTCGGGTAGGGCGTGGCGAAAGGAAATCCAGATGTGTGTTCC TATGCTCCACTCCTAGCGCGCTGCCAAGGTTGAAGGTGCTTGAGAAGTCATCCGATGGATTCTA CTTGGCTAACGCCGACCTGCTACTGCGTGGCCCTGGTGATCTACTCGGCAAGAAACAGTCAGGG CATCTTCCAGAGTTTCCAATAGCTAGACTGGAGATTGATGGCAGTATTCTACAAGAAGCTCATC TTGCTGCACTTGTAAGTTCATTTGCTAAACCCCAATTCGTGTTGCTATTAATGATCAGACAACT CTTCTATCACTGTAGTATATAACTTATTTGTTCATGTTTTTAAAAGTAGCTTTTTTGTGGCAGA ACGTTTTGGGAACAAGCAACGACCTTGCACAATTTCCAGGACTAAAAGTTGAGCTCAGCATGAG ACAACCGCTGTGCATTCTTGGAGATTGACCTGTGATCTTTACTGAGCAGACAGTGCAGTGAGAG TGTGACACTGAACAGCGTTGTAGTGCTCATTGGGCAAAGCTTTTGCATTCTGGCTTGTGCGGTG CAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osa_circ_016217* osa_circ_016218* 						
					
						PMCS

Conservation Information
Conserved circRNAs	osa_circ_016217* osa_circ_016218*
PMCS

			
						 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
						Huang et al., 2021

circRNA

Detail information of BGIOSGA008907_circ_igg.3

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