Plant Circular RNA Database

Detail information of Os03g0644000_circ_g.4

			
						 General Information
					
						CircRNA Name
						Os03g0644000_circ_g.4
					
						ID in PlantcircBase
						osa_circ_020768
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr3: 24836959-24839727  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os03g0644000						
					
						Parent gene annotation
						
							ATG6/Beclin-1 protein, Abiotic stresses (heat,cold and drought) 
and hormone (abscisic acid) response (Os03t0644000-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os03g0644000_circ_g.1 Os03g0644000_circ_g.2 Os03g0644000_circ_g.3 Os03g0644000_circ_g.5 Os03g0644000_circ_g.6 Os03g0644000_circ_g.7 Os03g0644000_circ_g.8 Os03g0644000_circ_g.9 						
					
						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
						Os03t0644000-01:6

General Information
CircRNA Name	Os03g0644000_circ_g.4
ID in PlantcircBase	osa_circ_020768
Alias	NA
Organism	Oryza sativa
Position	chr3: 24836959-24839727 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os03g0644000
Parent gene annotation	ATG6/Beclin-1 protein, Abiotic stresses (heat,cold and drought) and hormone (abscisic acid) response (Os03t0644000-01)
Parent gene strand	+
Alternative splicing	Os03g0644000_circ_g.1 Os03g0644000_circ_g.2 Os03g0644000_circ_g.3 Os03g0644000_circ_g.5 Os03g0644000_circ_g.6 Os03g0644000_circ_g.7 Os03g0644000_circ_g.8 Os03g0644000_circ_g.9
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	Os03t0644000-01:6

			
						 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  
						
							TAATTGTGCTACCTGAACATTTATCTAGATACCGGATCAAAATTCACCCTATGGGAAGCTATCC
AAAAGTTACAGACATCAACCAAAATACATATGAACTattgaacagccactctgtctggactgta
tgaggttgctgtctgataaaatggagaaggaaattgaagatgttaatactgacaataaagctta
tgaggcct

									
								

					

						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
						
							ATTGAACAGCCACTCTGTCTGGACTGTATGAGGTTGCTGTCTGATAAAATGGAGAAGGAAATTG
AAGATGTTAATACTGACAATAAAGCTTATGAGGCCTGTCTTCAACGTCTGGAGCAGGAAACCTA
TAACATCCTCAGTGAAACTGACTTTCAGAAGGAGAGACAAAAGGTGGTAATCTTTCTTACATAT
TTATGGTCATATCGTGATTAATGAGATCCTAAAGTGCATGACAGCCTGCTGCTTTGGACAAAAA
TAAGTAAGGCAGAAGTTTCTTTTGATAGATGAAACACATAGGTAGTGAGCAATGTTTTAAATGA
ACAAATAATTCCCTTGTAACTTCTCTGTAAGAGAATTCTTGCCCACTTATAAAAATGTTGAAGT
GCAACAGTTCCTGAAGAAGTTGCCTACTTGACCTTTCTTATGTGAAAAAAAAAAGAATAAGCAC
CTCTGACTGGTCAGTGGCCATGATTTTCATGGAACTAAATGTATTATGTGTTCTGCCATTTCAG
ATTGAGGAAGAAGAAAAGAAACTTAAAGCTGCAATTGAGGAAGCTGAAAAGCAATATTCAGAAA
TTTGTTCCGAGATGAAGTGCCTTGAAACAAAATCTAAACAGTTCGAAGAACTGGAAGAAAGGTT
AAAATTTTAATTAACCTTTTCATTTTGTCCTTTCTTGAATGTTCTTATTATTAACTCTGAAGTT
TCTCTACAAGAATCAGTGATATAGAGTCTTCAGTGATTTATAATTTGCTTTTGGGTGTGCATGT
GCATACTTGCAGGAGGCTCTCGACTCTTCTCTGTCTCTCTTTTTTTTCTGATGAGTCGTAACAT
TGTTATAGGCTATGAATACAACTGTTATATTGAAAACATTAATGTGTACCTATATTTGTCACCT
GAAACTAGACATTATTCAACAGAGTGTCAGTGTGCTATTCAATATAATTGGCAATTCGACATCA
GAAAATAGGAGTATCATTATTTGGGAATAATAACATAATACATCCCACACATGTTTTGTTATAT
CGCTACAACAATTGCTAGTGGTTTTGTGCAATCTGAAATATTTGGTTGGCTCATGTTATTTGTG
AAGTTCTACAGTTACTTGTTAAACAAATCTGATTTATCATATTTTTGAAACAGGTATTGCCATG
ATCTCAATAGCTTTCAGTTTCAGTGGATATCTCACCAGGTAAATACCTACTACAGGCCCTATAA
ATATTTACTTAGCACTATTTTCTTGATGTCATGTTTTGACTTCTTGTTAGCACAAAAACCTAAA
AACATTGTTATTTTCTAGCAGAACATAGAAACAACCAAATGCACTATATTCCAGATTTGTCATA
TACTCAATAGCTAAAGCTATATAAACTAAGTCTATAGCTGCCATGTTTTGTACTTTTGTTGGTA
TAAATAAACCTCTTTAAAAATTAACATTGTTTGTGAATAATGCTCTGTGTCTGTACTATCATGT
TTTGCGCTGCCTTCATAATAGAAAATAACTAGCTGAATGCCCATGCCTTGCTACGTTATACTAT
AGTATTGCCTAAAATAAATAAAAATATATTTTACATGAAATGTGTTGCCCATCCTTTTGTTATA
AGGAATATTCACCTTAATTTGATTTTATATGTGGCTATCCATTTAGATTTGGTTGTCTTTTAAC
ATGAAGACGCTCAAGGAGTAATTTATAAAATTTTCAATGGGACTAAGTGGGTTGGCAGATTCAC
TGCCATCACCAGTTCACCACTACCTTCTATTATAGGAGCATAGATATTATAATATGTATTGGTT
CCTTATACATAAGCTTCATAATGTCTGGGCTGTTTGCAAGCATTTGCCTGTCAATAACTCATTT
TTTTGTCACTTTCAGGAAGAAAGAGATGCGGTTTTGGCCAAGATAGAAGTTTCGCAGGTTCATC
TAGAATTGTTAAAGCGTACAAATGTTCTCAATGATGCATTCTATATTTCACATGATGGGGTGAT
CGGAACAATAAACAACTTTCGTCTTGGCCGCCTTCCTAATGTACAGGTAATTATGCAAAATGTG
CAGATATCACGTCCATTCACTATCTTTTAGTGCTTTCCTTGAATTCTATTCAAGATGTACATGG
AATGTTCATGTTGATCCTTTGTGTTAATGTAACAACTGTGTTACTCTTTTCTTAGGTGGAGTGG
GATGAGATAAATGCTGCTTGGGGCCAGGCTGCTCTTCTGTTGCATACCATGGCTCAGTACTTCT
TCCCAAAATTTGAGTATCCTTTATACAGTGACATTATTTTTGCTACAGTTTATTTGCTGGTCAT
TCTCTTGAGAAGTAATTCATACATGGCATTTACCTCCATCAACTAGTTATACAACATTACGACA
TACATGTTTCAGTGCATTTTAGTTGTTACTCCATGTAGTTGTTTGCTTTGTTCTTTCTGTATGG
CTCTGTGTTCAAAATATGTTTATTCTATATGAATCGAGCTTGTCTATATGTTATAACAAGTTGG
AAAGATAGTGTTGGATGGTTATTGGTTAGGGTGAATGCATAATTGCATATTATAGTCTTTTATT
GGATTGCATGATGTGTTTTTAGCAGATCTTCTCTCATAAGTAGCATTAAAAATGTGTATGTACA
TTGAAAAGGACAAATCCTAATACTCTACAATTGTTGACGAAATGATAATTGTGCTACCTGAACA
TTTATCTAGATACCGGATCAAAATTCACCCTATGGGAAGCTATCCAAAAGTTACAGACATCAAC
CAAAATACATATGAACT
						
					

			
		

Sequences
Splice junction sequence	TAATTGTGCTACCTGAACATTTATCTAGATACCGGATCAAAATTCACCCTATGGGAAGCTATCC AAAAGTTACAGACATCAACCAAAATACATATGAACTattgaacagccactctgtctggactgta tgaggttgctgtctgataaaatggagaaggaaattgaagatgttaatactgacaataaagctta tgaggcct
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	ATTGAACAGCCACTCTGTCTGGACTGTATGAGGTTGCTGTCTGATAAAATGGAGAAGGAAATTG AAGATGTTAATACTGACAATAAAGCTTATGAGGCCTGTCTTCAACGTCTGGAGCAGGAAACCTA TAACATCCTCAGTGAAACTGACTTTCAGAAGGAGAGACAAAAGGTGGTAATCTTTCTTACATAT TTATGGTCATATCGTGATTAATGAGATCCTAAAGTGCATGACAGCCTGCTGCTTTGGACAAAAA TAAGTAAGGCAGAAGTTTCTTTTGATAGATGAAACACATAGGTAGTGAGCAATGTTTTAAATGA ACAAATAATTCCCTTGTAACTTCTCTGTAAGAGAATTCTTGCCCACTTATAAAAATGTTGAAGT GCAACAGTTCCTGAAGAAGTTGCCTACTTGACCTTTCTTATGTGAAAAAAAAAAGAATAAGCAC CTCTGACTGGTCAGTGGCCATGATTTTCATGGAACTAAATGTATTATGTGTTCTGCCATTTCAG ATTGAGGAAGAAGAAAAGAAACTTAAAGCTGCAATTGAGGAAGCTGAAAAGCAATATTCAGAAA TTTGTTCCGAGATGAAGTGCCTTGAAACAAAATCTAAACAGTTCGAAGAACTGGAAGAAAGGTT AAAATTTTAATTAACCTTTTCATTTTGTCCTTTCTTGAATGTTCTTATTATTAACTCTGAAGTT TCTCTACAAGAATCAGTGATATAGAGTCTTCAGTGATTTATAATTTGCTTTTGGGTGTGCATGT GCATACTTGCAGGAGGCTCTCGACTCTTCTCTGTCTCTCTTTTTTTTCTGATGAGTCGTAACAT TGTTATAGGCTATGAATACAACTGTTATATTGAAAACATTAATGTGTACCTATATTTGTCACCT GAAACTAGACATTATTCAACAGAGTGTCAGTGTGCTATTCAATATAATTGGCAATTCGACATCA GAAAATAGGAGTATCATTATTTGGGAATAATAACATAATACATCCCACACATGTTTTGTTATAT CGCTACAACAATTGCTAGTGGTTTTGTGCAATCTGAAATATTTGGTTGGCTCATGTTATTTGTG AAGTTCTACAGTTACTTGTTAAACAAATCTGATTTATCATATTTTTGAAACAGGTATTGCCATG ATCTCAATAGCTTTCAGTTTCAGTGGATATCTCACCAGGTAAATACCTACTACAGGCCCTATAA ATATTTACTTAGCACTATTTTCTTGATGTCATGTTTTGACTTCTTGTTAGCACAAAAACCTAAA AACATTGTTATTTTCTAGCAGAACATAGAAACAACCAAATGCACTATATTCCAGATTTGTCATA TACTCAATAGCTAAAGCTATATAAACTAAGTCTATAGCTGCCATGTTTTGTACTTTTGTTGGTA TAAATAAACCTCTTTAAAAATTAACATTGTTTGTGAATAATGCTCTGTGTCTGTACTATCATGT TTTGCGCTGCCTTCATAATAGAAAATAACTAGCTGAATGCCCATGCCTTGCTACGTTATACTAT AGTATTGCCTAAAATAAATAAAAATATATTTTACATGAAATGTGTTGCCCATCCTTTTGTTATA AGGAATATTCACCTTAATTTGATTTTATATGTGGCTATCCATTTAGATTTGGTTGTCTTTTAAC ATGAAGACGCTCAAGGAGTAATTTATAAAATTTTCAATGGGACTAAGTGGGTTGGCAGATTCAC TGCCATCACCAGTTCACCACTACCTTCTATTATAGGAGCATAGATATTATAATATGTATTGGTT CCTTATACATAAGCTTCATAATGTCTGGGCTGTTTGCAAGCATTTGCCTGTCAATAACTCATTT TTTTGTCACTTTCAGGAAGAAAGAGATGCGGTTTTGGCCAAGATAGAAGTTTCGCAGGTTCATC TAGAATTGTTAAAGCGTACAAATGTTCTCAATGATGCATTCTATATTTCACATGATGGGGTGAT CGGAACAATAAACAACTTTCGTCTTGGCCGCCTTCCTAATGTACAGGTAATTATGCAAAATGTG CAGATATCACGTCCATTCACTATCTTTTAGTGCTTTCCTTGAATTCTATTCAAGATGTACATGG AATGTTCATGTTGATCCTTTGTGTTAATGTAACAACTGTGTTACTCTTTTCTTAGGTGGAGTGG GATGAGATAAATGCTGCTTGGGGCCAGGCTGCTCTTCTGTTGCATACCATGGCTCAGTACTTCT TCCCAAAATTTGAGTATCCTTTATACAGTGACATTATTTTTGCTACAGTTTATTTGCTGGTCAT TCTCTTGAGAAGTAATTCATACATGGCATTTACCTCCATCAACTAGTTATACAACATTACGACA TACATGTTTCAGTGCATTTTAGTTGTTACTCCATGTAGTTGTTTGCTTTGTTCTTTCTGTATGG CTCTGTGTTCAAAATATGTTTATTCTATATGAATCGAGCTTGTCTATATGTTATAACAAGTTGG AAAGATAGTGTTGGATGGTTATTGGTTAGGGTGAATGCATAATTGCATATTATAGTCTTTTATT GGATTGCATGATGTGTTTTTAGCAGATCTTCTCTCATAAGTAGCATTAAAAATGTGTATGTACA TTGAAAAGGACAAATCCTAATACTCTACAATTGTTGACGAAATGATAATTGTGCTACCTGAACA TTTATCTAGATACCGGATCAAAATTCACCCTATGGGAAGCTATCCAAAAGTTACAGACATCAAC CAAAATACATATGAACT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.108913486

Conservation Information
Conserved circRNAs	NA
PMCS	0.108913486

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							24836987-24836986(+)
24839146-24836960(+)
						
						Potential amino acid sequence
						
							MRLLSDKMEKEIEDVNTDNKAYEACLQRLEQETYNILSETDFQKERQKIEEEEKKLKAAIEEAE
KQYSEICSEMKCLETKSKQFEELEERYCHDLNSFQFQWISHQEERDAVLAKIEVSQVHLELLKR
TNVLNDAFYISHDGVIGTINNFRLGRLPNVQVEWDEINAAWGQAALLLHTMAQYFFPKFEYRIK
IHPMGSYPKVTDINQNTYELLNSHSVWTV*(+)
MLLGARLLFCCIPWLSTSSQNLNTGSKFTLWEAIQKLQTSTKIHMNY*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	24836987-24836986(+) 24839146-24836960(+)
Potential amino acid sequence	MRLLSDKMEKEIEDVNTDNKAYEACLQRLEQETYNILSETDFQKERQKIEEEEKKLKAAIEEAE KQYSEICSEMKCLETKSKQFEELEERYCHDLNSFQFQWISHQEERDAVLAKIEVSQVHLELLKR TNVLNDAFYISHDGVIGTINNFRLGRLPNVQVEWDEINAAWGQAALLLHTMAQYFFPKFEYRIK IHPMGSYPKVTDINQNTYELLNSHSVWTV(+) MLLGARLLFCCIPWLSTSSQNLNTGSKFTLWEAIQKLQTSTKIHMNY(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os03g0644000_circ_g.4

Address

Any questions?

Supported by