Plant Circular RNA Database

Detail information of Os07g0495900_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os07g0495900_circ_g.1
					
						ID in PlantcircBase
						osa_circ_033898
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr7: 18557897-18560339  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os07g0495900						
					
						Parent gene annotation
						
							Similar to low-level beta-amylase 1. (Os07t0495900-01);Similar t
o predicted protein. (Os07t0495900-02);Similar to predicted prot
ein. (Os07t0495900-03);Similar to predicted protein. (Os07t04959
00-04)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os07g0495900_circ_g.2 Os07g0495900_circ_g.3 Os07g0495900_circ_g.4 Os07g0495900_circ_g.5 Os07g0495900_circ_g.6 Os07g0495900_circ_g.7 Os07g0495900_circ_g.8 Os07g0495900_circ_g.9 Os07g0495900_circ_g.10 Os07g0495900_circ_g.11 						
					
						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
						Os07t0495900-02:10
Os07t0495900-03:5
Os07t0495900-01:10

General Information
CircRNA Name	Os07g0495900_circ_g.1
ID in PlantcircBase	osa_circ_033898
Alias	NA
Organism	Oryza sativa
Position	chr7: 18557897-18560339 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os07g0495900
Parent gene annotation	Similar to low-level beta-amylase 1. (Os07t0495900-01);Similar t o predicted protein. (Os07t0495900-02);Similar to predicted prot ein. (Os07t0495900-03);Similar to predicted protein. (Os07t04959 00-04)
Parent gene strand	+
Alternative splicing	Os07g0495900_circ_g.2 Os07g0495900_circ_g.3 Os07g0495900_circ_g.4 Os07g0495900_circ_g.5 Os07g0495900_circ_g.6 Os07g0495900_circ_g.7 Os07g0495900_circ_g.8 Os07g0495900_circ_g.9 Os07g0495900_circ_g.10 Os07g0495900_circ_g.11
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	Os07t0495900-02:10 Os07t0495900-03:5 Os07t0495900-01:10

			
						 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  
						
							GGGCCCAGTCATCATGTGCAAAAAGGCAGCTCGTGCAGGATTAGCACAATCGCTCTTTGAACGG
CTTGTTATCCTTGGAGTCAAGCCTTTCAGGCTACAGattaaacttacggcacaagaggaggtag
cacttgaacttcgtgctagtcaggtatgaggagtatagctctcacttgtttttcttagtaacct
tttactgc

									
								

					

						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
						
							ATTAAACTTACGGCACAAGAGGAGGTAGCACTTGAACTTCGTGCTAGTCAGGTATGAGGAGTAT
AGCTCTCACTTGTTTTTCTTAGTAACCTTTTACTGCTCCCATTTTCCATCATAAACTTTCCTGA
TTTCAGGGAGTTCCTGTTGATTTGAACCATGGATTCAGTGTGGATTTTGTCTGGAAGAGTACTA
GCTTTGATAGGATGCAGGGGGCAATGAAAACTTTTGCTGTGGATGAGACAAGTGTCAGTGGGTG
AGTTAGATGCATCTATATCGTGTATACTTAGAATTTCTGGTCCTCTAGTCATATTTATATTGCT
TTTACTATGATTACTGCTTAAGGATGAACACACATTTCTTTGCGATTGAACAAAGTGTTTAAGT
AAAAAATGTATATTTTTAGCTATTTTTTAAGTTTATGGTTGTTGGTACCTTTTTTGGGGATATG
GTTAAAGGTTGATAGGACCCTGATGAATTGGGAAGAACTCTCGCAAAATATCCCTAGTCTGTAT
TTGGATTCTTTGTTGGATAATCACAATCTTTTCAAATGTCTCATGAGGAAATTCTTACTCTTCT
GTTGCTTCAACGTAGGTACATATACCATCACCTTTTGGGACATGAAGTTGAGCATCAAATAATA
CGTAATACACTACCGAGACGCTTTGGTGCACCAGGACTTCCAGAACTAAATGCTTCACAGGTAT
GTTTTTGTGCTTCTAGAAAAATGGGTCGATACATCAGTTTAGTGTTGTTTCTTATCTACTCCCT
CCATCCCAAAATATAGCTACCTTTAGCATTCAAAATTTCTCCCAAAACATAGTTACTTCACCTA
CTCCTTCACCTCAACCAATCACAACCATCTCCCATTTAATTTCTCCATCTACATCCTCTTCTTC
ACCAATCATAATCTTTCCCCATTTAATTCCACCAACTTTCTTCATCTCCGTGCAAAACCTATTT
TTTTTAATCTAACTTCAGGTGTTCAGCTATTATGCCATAGCTTCACTGAAGTAGAATTAAACAC
TATATGTTGATCTAATGTTCTATTCTGATCTTGTGGTGCATCTATTCAGGTCTTAGCAGTTAAA
AGTGTTCTCCAGAAGCCAATTAGTTTGATTCAAGGTCCACCTGGCACAGGGAAAACTGTCACAT
CTGCTGCGATCGTGTATCACATGGCAAAACAAGGCCAAGGACAGGTATAAGAGTGCATGGCATT
TGCTCTGCTGGCATAATTTGATGCTATTGTTAACCTTGTCTGATTTGAAATTTCAGGTCCTTGT
ATGTGCTCCAAGTAATGTAGCCGTTGATCAGTTGGCAGAGAAGATAAGCTCTACTGGTCTCAAG
GTAAACAATAATTTATGGTTTATTTTAAGTATCAACTGTTTCCTGTATTTTTGACTTGTCTGCT
ATCCCGTTTGACACAGTCCATTGAGTAGTAAAACCATTTTAAGATAGAAGTTTCAAATTACATG
CTTGGCTTCTATCGATGTTGATACTGAGCTTTTTTTGTATGCTCCTGTGGTTCGCAGGAGTAAT
TTTGCCATGTTGAATATATACGCGTTTTGAAACTGTTAAATTACTAGTACATCTCATACATTCT
TTACTATTTACATTTCCAGTTAGTAACTGTGGTTGCATATTGCAGGTTGTCAGGCTATGTGCAA
AATCTAGGGAAGCTGTTTCATCTCCTGTTGAGCATTTGACACTTCATTATCAGGTACATTCTTG
ATTCTTGGCTAGTTGTTTACCTGTGAAATAGCCATACGCTTGATGATGTCACTGATGTTCCTTT
ATGCATAAAACGTAGGTTCGGCACCTTGATACATCTGAAAAGAGTGAATTGCATAAGCTACAGC
AACTCAAAGATGAACAAGGTCCTTAAACTCTCTCGGCCATTCTGTTTGGTTGAATTAGAAAATT
TTCTTATATTCTATTTTTATAGGTGAATTGTCAAGCAGTGATGAGAAAAAGTACAAGGCATTAA
AACGAGCTACTGAGAGAGAGATATTACAAAGTGCTGATGTGATTTGTTGCACTTGTGTTGGTGC
TGGAGACCCTCGTTTAGCAAACTTCCGATTCCGTCAAGTAATACTTTCTTTCTAATAGCAGTTT
AATTTTGATGTCTGCTCTTTATTGAGGTGATGGAGTTTCTTTCTTCTTTTTTTTTTTATGTCAG
GTTCTTATTGATGAATCTACACAGGCAACAGAGCCTGAATGTCTCATTCCATTGGTGCTTGGTG
TAAAGCAGGTAACAAGTAATTAATTGGTGGTTTTTTGTTCTTTCCATTATGCTATATTTATACT
CTTTCTTTAGGTTGTTCTTGTTGGAGATCATTGTCAACTGGGCCCAGTCATCATGTGCAAAAAG
GCAGCTCGTGCAGGATTAGCACAATCGCTCTTTGAACGGCTTGTTATCCTTGGAGTCAAGCCTT
TCAGGCTACAG
						
					

			
		

Sequences
Splice junction sequence	GGGCCCAGTCATCATGTGCAAAAAGGCAGCTCGTGCAGGATTAGCACAATCGCTCTTTGAACGG CTTGTTATCCTTGGAGTCAAGCCTTTCAGGCTACAGattaaacttacggcacaagaggaggtag cacttgaacttcgtgctagtcaggtatgaggagtatagctctcacttgtttttcttagtaacct tttactgc
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	ATTAAACTTACGGCACAAGAGGAGGTAGCACTTGAACTTCGTGCTAGTCAGGTATGAGGAGTAT AGCTCTCACTTGTTTTTCTTAGTAACCTTTTACTGCTCCCATTTTCCATCATAAACTTTCCTGA TTTCAGGGAGTTCCTGTTGATTTGAACCATGGATTCAGTGTGGATTTTGTCTGGAAGAGTACTA GCTTTGATAGGATGCAGGGGGCAATGAAAACTTTTGCTGTGGATGAGACAAGTGTCAGTGGGTG AGTTAGATGCATCTATATCGTGTATACTTAGAATTTCTGGTCCTCTAGTCATATTTATATTGCT TTTACTATGATTACTGCTTAAGGATGAACACACATTTCTTTGCGATTGAACAAAGTGTTTAAGT AAAAAATGTATATTTTTAGCTATTTTTTAAGTTTATGGTTGTTGGTACCTTTTTTGGGGATATG GTTAAAGGTTGATAGGACCCTGATGAATTGGGAAGAACTCTCGCAAAATATCCCTAGTCTGTAT TTGGATTCTTTGTTGGATAATCACAATCTTTTCAAATGTCTCATGAGGAAATTCTTACTCTTCT GTTGCTTCAACGTAGGTACATATACCATCACCTTTTGGGACATGAAGTTGAGCATCAAATAATA CGTAATACACTACCGAGACGCTTTGGTGCACCAGGACTTCCAGAACTAAATGCTTCACAGGTAT GTTTTTGTGCTTCTAGAAAAATGGGTCGATACATCAGTTTAGTGTTGTTTCTTATCTACTCCCT CCATCCCAAAATATAGCTACCTTTAGCATTCAAAATTTCTCCCAAAACATAGTTACTTCACCTA CTCCTTCACCTCAACCAATCACAACCATCTCCCATTTAATTTCTCCATCTACATCCTCTTCTTC ACCAATCATAATCTTTCCCCATTTAATTCCACCAACTTTCTTCATCTCCGTGCAAAACCTATTT TTTTTAATCTAACTTCAGGTGTTCAGCTATTATGCCATAGCTTCACTGAAGTAGAATTAAACAC TATATGTTGATCTAATGTTCTATTCTGATCTTGTGGTGCATCTATTCAGGTCTTAGCAGTTAAA AGTGTTCTCCAGAAGCCAATTAGTTTGATTCAAGGTCCACCTGGCACAGGGAAAACTGTCACAT CTGCTGCGATCGTGTATCACATGGCAAAACAAGGCCAAGGACAGGTATAAGAGTGCATGGCATT TGCTCTGCTGGCATAATTTGATGCTATTGTTAACCTTGTCTGATTTGAAATTTCAGGTCCTTGT ATGTGCTCCAAGTAATGTAGCCGTTGATCAGTTGGCAGAGAAGATAAGCTCTACTGGTCTCAAG GTAAACAATAATTTATGGTTTATTTTAAGTATCAACTGTTTCCTGTATTTTTGACTTGTCTGCT ATCCCGTTTGACACAGTCCATTGAGTAGTAAAACCATTTTAAGATAGAAGTTTCAAATTACATG CTTGGCTTCTATCGATGTTGATACTGAGCTTTTTTTGTATGCTCCTGTGGTTCGCAGGAGTAAT TTTGCCATGTTGAATATATACGCGTTTTGAAACTGTTAAATTACTAGTACATCTCATACATTCT TTACTATTTACATTTCCAGTTAGTAACTGTGGTTGCATATTGCAGGTTGTCAGGCTATGTGCAA AATCTAGGGAAGCTGTTTCATCTCCTGTTGAGCATTTGACACTTCATTATCAGGTACATTCTTG ATTCTTGGCTAGTTGTTTACCTGTGAAATAGCCATACGCTTGATGATGTCACTGATGTTCCTTT ATGCATAAAACGTAGGTTCGGCACCTTGATACATCTGAAAAGAGTGAATTGCATAAGCTACAGC AACTCAAAGATGAACAAGGTCCTTAAACTCTCTCGGCCATTCTGTTTGGTTGAATTAGAAAATT TTCTTATATTCTATTTTTATAGGTGAATTGTCAAGCAGTGATGAGAAAAAGTACAAGGCATTAA AACGAGCTACTGAGAGAGAGATATTACAAAGTGCTGATGTGATTTGTTGCACTTGTGTTGGTGC TGGAGACCCTCGTTTAGCAAACTTCCGATTCCGTCAAGTAATACTTTCTTTCTAATAGCAGTTT AATTTTGATGTCTGCTCTTTATTGAGGTGATGGAGTTTCTTTCTTCTTTTTTTTTTTATGTCAG GTTCTTATTGATGAATCTACACAGGCAACAGAGCCTGAATGTCTCATTCCATTGGTGCTTGGTG TAAAGCAGGTAACAAGTAATTAATTGGTGGTTTTTTGTTCTTTCCATTATGCTATATTTATACT CTTTCTTTAGGTTGTTCTTGTTGGAGATCATTGTCAACTGGGCCCAGTCATCATGTGCAAAAAG GCAGCTCGTGCAGGATTAGCACAATCGCTCTTTGAACGGCTTGTTATCCTTGGAGTCAAGCCTT TCAGGCTACAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.139078759

Conservation Information
Conserved circRNAs	NA
PMCS	0.139078759

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							18558101-18560336(+)
18558529-18560336(-)
						
					

						Potential amino acid sequence
						
							MQGAMKTFAVDETSVSGYIYHHLLGHEVEHQIIRNTLPRRFGAPGLPELNASQVLAVKSVLQKP
ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISSTGLKVVRLCAKSRE
AVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREILQSADV
ICCTCVGAGDPRLANFRFRQVLIDESTQATEPECLIPLVLGVKQVVLVGDHCQLGPVIMCKKAA
RAGLAQSLFERLVILGVKPFRLQIKLTAQEEVALELRASQGVPVDLNHGFSVDFVWKSTSFDRM
QGAMKTFAVDETSVSGYIYHHLLGHEVEHQIIRNTLPRRFGAPGLPELNASQVLAVKSVLQKPI
SLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISSTGLKVVRLCAKSREA
VSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREILQSADVI
CCTCVGAGDPRLANFRFRQVLIDESTQATEPECLIPLVLGVKQVVLVGDHCQLGPVIMCKKAAR
AGLAQSLFERLVILGVKPFRLQIKLTAQEEVALELRASQGVPVDLNHGFSVDFVWKSTSFDRMQ
GAMKTFAVDETSVSGYIYHHLLGHEVEHQIIRNTLPRRFGAPGLPELNASQVLAVKSVLQKPIS
LIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISSTGLKVVRLCAKSREAV
SSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREILQSADVIC
CTCVGAGDPRLANFRFRQVLIDESTQATEPECLIPLVLGVKQVVLVGDHCQLGPVIMCKKAARA
GLAQSLFERLVILGVKPFRLQIKLTAQEEVALELRASQGVPVDLNHGFSVDFVWKSTSFDRMQG
AMKTFAVDETSVSGYIYHHLLGHEVEHQIIRNTLPRRFGAPGLPELNASQVLAVKSVLQKPISL
IQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISSTGLKVVRLCAKSREAVS
SPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREILQSADVICC
TCVGAGDPRLANFRFRQVLIDESTQATEPECLIPLVLGVKQVVLVGDHCQLGPVIMCKKAARAG
LAQSLFERLVILGVKPFRLQ(+)
MLNFMSQKVMVYVPTDTCLIHSKSFHCPLHPIKASTLPDKIHTESMVQINRNSLTSTKFKCYLL
LCRKFNL*(-)
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	18558101-18560336(+) 18558529-18560336(-)
Potential amino acid sequence	MQGAMKTFAVDETSVSGYIYHHLLGHEVEHQIIRNTLPRRFGAPGLPELNASQVLAVKSVLQKP ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISSTGLKVVRLCAKSRE AVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREILQSADV ICCTCVGAGDPRLANFRFRQVLIDESTQATEPECLIPLVLGVKQVVLVGDHCQLGPVIMCKKAA RAGLAQSLFERLVILGVKPFRLQIKLTAQEEVALELRASQGVPVDLNHGFSVDFVWKSTSFDRM QGAMKTFAVDETSVSGYIYHHLLGHEVEHQIIRNTLPRRFGAPGLPELNASQVLAVKSVLQKPI SLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISSTGLKVVRLCAKSREA VSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREILQSADVI CCTCVGAGDPRLANFRFRQVLIDESTQATEPECLIPLVLGVKQVVLVGDHCQLGPVIMCKKAAR AGLAQSLFERLVILGVKPFRLQIKLTAQEEVALELRASQGVPVDLNHGFSVDFVWKSTSFDRMQ GAMKTFAVDETSVSGYIYHHLLGHEVEHQIIRNTLPRRFGAPGLPELNASQVLAVKSVLQKPIS LIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISSTGLKVVRLCAKSREAV SSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREILQSADVIC CTCVGAGDPRLANFRFRQVLIDESTQATEPECLIPLVLGVKQVVLVGDHCQLGPVIMCKKAARA GLAQSLFERLVILGVKPFRLQIKLTAQEEVALELRASQGVPVDLNHGFSVDFVWKSTSFDRMQG AMKTFAVDETSVSGYIYHHLLGHEVEHQIIRNTLPRRFGAPGLPELNASQVLAVKSVLQKPISL IQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISSTGLKVVRLCAKSREAVS SPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREILQSADVICC TCVGAGDPRLANFRFRQVLIDESTQATEPECLIPLVLGVKQVVLVGDHCQLGPVIMCKKAARAG LAQSLFERLVILGVKPFRLQ(+) MLNFMSQKVMVYVPTDTCLIHSKSFHCPLHPIKASTLPDKIHTESMVQINRNSLTSTKFKCYLL LCRKFNL*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os07g0495900_circ_g.1

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