Plant Circular RNA Database

Detail information of Os01g0934200_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os01g0934200_circ_g.2
					
						ID in PlantcircBase
						osa_circ_005691
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr1: 40979527-40981933  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os01g0934200						
					
						Parent gene annotation
						
							Mitochondrial carrier protein domain containing protein. (Os01t0
934200-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os01g0934200_circ_g.3 Os01g0934200_circ_g.4 Os01g0934200_circ_g.5 Os01g0934200_circ_g.6 Os01g0934200_circ_g.7 						
					
						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  
						
							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
						Os01t0934200-01:5

General Information
CircRNA Name	Os01g0934200_circ_g.2
ID in PlantcircBase	osa_circ_005691
Alias	NA
Organism	Oryza sativa
Position	chr1: 40979527-40981933 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os01g0934200
Parent gene annotation	Mitochondrial carrier protein domain containing protein. (Os01t0 934200-01)
Parent gene strand	+
Alternative splicing	Os01g0934200_circ_g.3 Os01g0934200_circ_g.4 Os01g0934200_circ_g.5 Os01g0934200_circ_g.6 Os01g0934200_circ_g.7
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	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	Os01t0934200-01:5

			
						 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  
						
							TTCAGTATCAAGCTTCCAGTTATTTCTTTGTGGATTTGCAGCCGGAACATTTTCAAAAGCTGCT
TGTCACCCACTTGATGTTGTAAAGAAAAGATTTCAGgttcaattggagcccacaacctcgtggg
gtgtacttcgaagggatgtctatggaccttccaagtacactgggcttttgcaagcaagtaaaga
tattctcc

									
								

					

						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
						
							GTTCAATTGGAGCCCACAACCTCGTGGGGTGTACTTCGAAGGGATGTCTATGGACCTTCCAAGT
ACACTGGGCTTTTGCAAGCAAGTAAAGATATTCTCCGAGAGGAAGGTTTGCCGGTATCTCCTTT
TCTTTGAACATTTCTCTGTTCATGTGCTGTTTACTAGTGACATATGCATGTGCTGCTGCTTATT
AACTTGCATGCCTGAGTGGGATCACTCATCCAAATATCAGTTTTAATATCATTTTATTATGCTG
AACATGGACCAAATGCAAAAGCAGGGCGGGCTTATGGATTTCACTTCTGCTGCTAATTCTGCTA
ACTTTATTGAGTAACATTGATTTGGTGACATCTAGCATGTATCAAAGGCTACTCAGCCACACGT
TGCACTGTCTCTTCCTGTCATATAACTTATGGTGATGCATTAAAACAAAACCCATTAATTTGAT
CTACTCCTGGTTCAGTTCAAATGAAAATGGAAGGCACCAAGCTGCAAGATATACTACTCTGACA
CTATTCTCCAAAAAAGTACCACATGTGTTTTTATGGCTGAAATAGAGGCTTGAAGTTTACTTGT
TAGGTGATATTGGCTGCTGGTTTTGAAATACATTTTTTCCTGCAATGTATTGGGAATCACAGTG
TGTGTTGCCTTTATTTTTTGCCCTAGATCTGTATACTTTGTTAATCTATGTGTGATTTGTTCTT
ATTTTCTGTTTGTTTTAAATGTCATATCTTAAACAAAAAGAATTATTCATTAAGAAAAGTCGTC
ACCATGCAAAATTCTGATCTTTCAGGGATTTTGGAGAGGAAATGTTCCAGCCCTATTAATGTAT
ATGCCATATACAGCTATACAATTCACTGTTCTACACAAGCTGAAAACATTTGCTTCTGGTTCAT
CCAAAACAGGTACATTTTCTCTTTATGGTATCTGTTCCAACTTGGTCCATTGTTCTAGACTGAA
GTATGAATTACAGTGGTCACTCCTCAAACCTTAATTTTTAGTGTGTACAAAAGTTATGAGGTTT
GCCCAGAACTTTGAGCTTTGTATTGTCTCTATAGTCCTTACCTGATCTGTGTTATTTGCCCAGA
GGATCATTTGCACTTGAGTCCTTACCTATCGTATGTAAGTGGGGCTATAGCAGGATGTGCAGCA
ACAGTAGGATCATATCCATTTGACCTTCTCAGAACAATTCTTGCATCACAGGGTGAACCGAAGG
TAAATATGTACTCTGCGGTTGTAGACACCTTTTTTTTTTTGTTTCATTGAGGTATTAACATGAT
CTCTGGTCATATATTCTCACTTTATTAGCTCCTAATAGCATGGATGTGATACTTGTTCATAATG
ACTGAATCGTCATCTTCAGTATACATACATAACATAGTATGCAAAGGACTTCCTGGCACCTTTT
TTGTTTTCTCAATCGTTTCTCTTCATTCCCTGATTCGTGTAGTTTTGTCAACATTGCACACCAC
ACTACATAGGAGCAGTTTAAGGTTGAGGTCTTTTTGGCTGGAAATCTAGTTTTCTTTGCAGAAC
TTAAAACAACACTGATTCATATTGTTGTTTGAAAAACATGAATTTTTCCTTTTTTATTATTGGA
TTTTATTATGCAAATGATTATTTTGTGCTGAACTTTTCCACTATCATGTATTTATTCAGCATAT
AGAGTACTGGAATATCATGGCACAAAATTGTATTCACATGCAGTTATGTTTATCTGTAGGTTTA
CCCTGACATGAGGTCTGCATTTCTTGATATAATGAAAACCCGCGGTTTCCGAGGACTTTACGCC
GGTCTAACTCCAACTCTTGTTGAAATCATACCATATGCTGGCTTACAGTTTGGTTCATATGATA
CTTTCAAACGGTCGATGATGGTAACAATACTAATATCTCTTTTTTGGCATGTGCTTAATTAGAC
TATTTTGAGGTGATTTATGCCATTTTAGATATTGTAGCTTAGCCTCAACTTTATTTGTCTCCAA
GTCTGATCATATTTACACTTTTCTTGAGAATGATGACACTGAAGTATTGAGATTAAGGAAAGGT
AGTGAATCTATATATCTTTCAAACAAGTGAAGACCTAAAAATCTAACGACGCTTAAATAAGCAA
TCTGTAATTACTAGTTATGTGGAACAATCTTAATGCTTGATAAGAAAAAAATTATCTTTGACAC
TTAGAAACTTTTTATTGCTGTGGGATTCCGTGAATGCTGTTAATGCTTGAACCATCTGACTTTA
TTTTTTTTTCAATGTAGACATGGAATAGGTACCGATATTCACATCTTAACTCAGGAAGTGAGGA
TGATTCAGTATCAAGCTTCCAGTTATTTCTTTGTGGATTTGCAGCCGGAACATTTTCAAAAGCT
GCTTGTCACCCACTTGATGTTGTAAAGAAAAGATTTCAG
						
					

			
		

Sequences
Splice junction sequence	TTCAGTATCAAGCTTCCAGTTATTTCTTTGTGGATTTGCAGCCGGAACATTTTCAAAAGCTGCT TGTCACCCACTTGATGTTGTAAAGAAAAGATTTCAGgttcaattggagcccacaacctcgtggg gtgtacttcgaagggatgtctatggaccttccaagtacactgggcttttgcaagcaagtaaaga tattctcc
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	GTTCAATTGGAGCCCACAACCTCGTGGGGTGTACTTCGAAGGGATGTCTATGGACCTTCCAAGT ACACTGGGCTTTTGCAAGCAAGTAAAGATATTCTCCGAGAGGAAGGTTTGCCGGTATCTCCTTT TCTTTGAACATTTCTCTGTTCATGTGCTGTTTACTAGTGACATATGCATGTGCTGCTGCTTATT AACTTGCATGCCTGAGTGGGATCACTCATCCAAATATCAGTTTTAATATCATTTTATTATGCTG AACATGGACCAAATGCAAAAGCAGGGCGGGCTTATGGATTTCACTTCTGCTGCTAATTCTGCTA ACTTTATTGAGTAACATTGATTTGGTGACATCTAGCATGTATCAAAGGCTACTCAGCCACACGT TGCACTGTCTCTTCCTGTCATATAACTTATGGTGATGCATTAAAACAAAACCCATTAATTTGAT CTACTCCTGGTTCAGTTCAAATGAAAATGGAAGGCACCAAGCTGCAAGATATACTACTCTGACA CTATTCTCCAAAAAAGTACCACATGTGTTTTTATGGCTGAAATAGAGGCTTGAAGTTTACTTGT TAGGTGATATTGGCTGCTGGTTTTGAAATACATTTTTTCCTGCAATGTATTGGGAATCACAGTG TGTGTTGCCTTTATTTTTTGCCCTAGATCTGTATACTTTGTTAATCTATGTGTGATTTGTTCTT ATTTTCTGTTTGTTTTAAATGTCATATCTTAAACAAAAAGAATTATTCATTAAGAAAAGTCGTC ACCATGCAAAATTCTGATCTTTCAGGGATTTTGGAGAGGAAATGTTCCAGCCCTATTAATGTAT ATGCCATATACAGCTATACAATTCACTGTTCTACACAAGCTGAAAACATTTGCTTCTGGTTCAT CCAAAACAGGTACATTTTCTCTTTATGGTATCTGTTCCAACTTGGTCCATTGTTCTAGACTGAA GTATGAATTACAGTGGTCACTCCTCAAACCTTAATTTTTAGTGTGTACAAAAGTTATGAGGTTT GCCCAGAACTTTGAGCTTTGTATTGTCTCTATAGTCCTTACCTGATCTGTGTTATTTGCCCAGA GGATCATTTGCACTTGAGTCCTTACCTATCGTATGTAAGTGGGGCTATAGCAGGATGTGCAGCA ACAGTAGGATCATATCCATTTGACCTTCTCAGAACAATTCTTGCATCACAGGGTGAACCGAAGG TAAATATGTACTCTGCGGTTGTAGACACCTTTTTTTTTTTGTTTCATTGAGGTATTAACATGAT CTCTGGTCATATATTCTCACTTTATTAGCTCCTAATAGCATGGATGTGATACTTGTTCATAATG ACTGAATCGTCATCTTCAGTATACATACATAACATAGTATGCAAAGGACTTCCTGGCACCTTTT TTGTTTTCTCAATCGTTTCTCTTCATTCCCTGATTCGTGTAGTTTTGTCAACATTGCACACCAC ACTACATAGGAGCAGTTTAAGGTTGAGGTCTTTTTGGCTGGAAATCTAGTTTTCTTTGCAGAAC TTAAAACAACACTGATTCATATTGTTGTTTGAAAAACATGAATTTTTCCTTTTTTATTATTGGA TTTTATTATGCAAATGATTATTTTGTGCTGAACTTTTCCACTATCATGTATTTATTCAGCATAT AGAGTACTGGAATATCATGGCACAAAATTGTATTCACATGCAGTTATGTTTATCTGTAGGTTTA CCCTGACATGAGGTCTGCATTTCTTGATATAATGAAAACCCGCGGTTTCCGAGGACTTTACGCC GGTCTAACTCCAACTCTTGTTGAAATCATACCATATGCTGGCTTACAGTTTGGTTCATATGATA CTTTCAAACGGTCGATGATGGTAACAATACTAATATCTCTTTTTTGGCATGTGCTTAATTAGAC TATTTTGAGGTGATTTATGCCATTTTAGATATTGTAGCTTAGCCTCAACTTTATTTGTCTCCAA GTCTGATCATATTTACACTTTTCTTGAGAATGATGACACTGAAGTATTGAGATTAAGGAAAGGT AGTGAATCTATATATCTTTCAAACAAGTGAAGACCTAAAAATCTAACGACGCTTAAATAAGCAA TCTGTAATTACTAGTTATGTGGAACAATCTTAATGCTTGATAAGAAAAAAATTATCTTTGACAC TTAGAAACTTTTTATTGCTGTGGGATTCCGTGAATGCTGTTAATGCTTGAACCATCTGACTTTA TTTTTTTTTCAATGTAGACATGGAATAGGTACCGATATTCACATCTTAACTCAGGAAGTGAGGA TGATTCAGTATCAAGCTTCCAGTTATTTCTTTGTGGATTTGCAGCCGGAACATTTTCAAAAGCT GCTTGTCACCCACTTGATGTTGTAAAGAAAAGATTTCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.113528566

Conservation Information
Conserved circRNAs	NA
PMCS	0.113528566

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							40980354-40981930(+)
40980367-40981814(-)
						
						Potential amino acid sequence
						
							MYMPYTAIQFTVLHKLKTFASGSSKTEDHLHLSPYLSYVSGAIAGCAATVGSYPFDLLRTILAS
QGEPKVYPDMRSAFLDIMKTRGFRGLYAGLTPTLVEIIPYAGLQFGSYDTFKRSMMTWNRYRYS
HLNSGSEDDSVSSFQLFLCGFAAGTFSKAACHPLDVVKKRFQVQLEPTTSWGVLRRDVYGPSKY
TGLLQASKDILREEGLPGFWRGNVPALLMYMPYTAIQFTVLHKLKTFASGSSKTEDHLHLSPYL
SYVSGAIAGCAATVGSYPFDLLRTILASQGEPKVYPDMRSAFLDIMKTRGFRGLYAGLTPTLVE
IIPYAGLQFGSYDTFKRSMMTWNRYRYSHLNSGSEDDSVSSFQLFLCGFAAGTFSKAACHPLDV
VKKRFQVQLEPTTSWGVLRRDVYGPSKYTGLLQASKDILREEGLPGFWRGNVPALLMYMPYTAI
QFTVLHKLKTFASGSSKTEDHLHLSPYLSYVSGAIAGCAATVGSYPFDLLRTILASQGEPKVYP
DMRSAFLDIMKTRGFRGLYAGLTPTLVEIIPYAGLQFGSYDTFKRSMMTWNRYRYSHLNSGSED
DSVSSFQLFLCGFAAGTFSKAACHPLDVVKKRFQVQLEPTTSWGVLRRDVYGPSKYTGLLQASK
DILREEGLPGFWRGNVPALLMYMPYTAIQFTVLHKLKTFASGSSKTEDHLHLSPYLSYVSGAIA
GCAATVGSYPFDLLRTILASQGEPKVYPDMRSAFLDIMKTRGFRGLYAGLTPTLVEIIPYAGLQ
FGSYDTFKRSMMTWNRYRYSHLNSGSEDDSVSSFQLFLCGFAAGTFSKAACHPLDVVKKRFQ(+
)
MAYTLIGLEHFLSKIPANLPLGEYLYLLAKAQCTWKVHRHPFEVHPTRLWAPIEPEIFSLQHQV
GDKQLLKMFRLQIHKEITGSLILNHPHFLS*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	40980354-40981930(+) 40980367-40981814(-)
Potential amino acid sequence	MYMPYTAIQFTVLHKLKTFASGSSKTEDHLHLSPYLSYVSGAIAGCAATVGSYPFDLLRTILAS QGEPKVYPDMRSAFLDIMKTRGFRGLYAGLTPTLVEIIPYAGLQFGSYDTFKRSMMTWNRYRYS HLNSGSEDDSVSSFQLFLCGFAAGTFSKAACHPLDVVKKRFQVQLEPTTSWGVLRRDVYGPSKY TGLLQASKDILREEGLPGFWRGNVPALLMYMPYTAIQFTVLHKLKTFASGSSKTEDHLHLSPYL SYVSGAIAGCAATVGSYPFDLLRTILASQGEPKVYPDMRSAFLDIMKTRGFRGLYAGLTPTLVE IIPYAGLQFGSYDTFKRSMMTWNRYRYSHLNSGSEDDSVSSFQLFLCGFAAGTFSKAACHPLDV VKKRFQVQLEPTTSWGVLRRDVYGPSKYTGLLQASKDILREEGLPGFWRGNVPALLMYMPYTAI QFTVLHKLKTFASGSSKTEDHLHLSPYLSYVSGAIAGCAATVGSYPFDLLRTILASQGEPKVYP DMRSAFLDIMKTRGFRGLYAGLTPTLVEIIPYAGLQFGSYDTFKRSMMTWNRYRYSHLNSGSED DSVSSFQLFLCGFAAGTFSKAACHPLDVVKKRFQVQLEPTTSWGVLRRDVYGPSKYTGLLQASK DILREEGLPGFWRGNVPALLMYMPYTAIQFTVLHKLKTFASGSSKTEDHLHLSPYLSYVSGAIA GCAATVGSYPFDLLRTILASQGEPKVYPDMRSAFLDIMKTRGFRGLYAGLTPTLVEIIPYAGLQ FGSYDTFKRSMMTWNRYRYSHLNSGSEDDSVSSFQLFLCGFAAGTFSKAACHPLDVVKKRFQ(+ ) MAYTLIGLEHFLSKIPANLPLGEYLYLLAKAQCTWKVHRHPFEVHPTRLWAPIEPEIFSLQHQV GDKQLLKMFRLQIHKEITGSLILNHPHFLS*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os01g0934200_circ_g.2

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