Plant Circular RNA Database

Detail information of Os12g0128800_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os12g0128800_circ_g.1
					
						ID in PlantcircBase
						osa_circ_010413
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr12: 1369564-1371763  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os12g0128800						
					
						Parent gene annotation
						
							Similar to Arabinoxylan arabinofuranohydrolase isoenzyme AXAH-I.
 (Os12t0128800-01);Similar to cDNA clone:J033138B08, full insert
 sequence. (Os12t0128800-02)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os12g0128700_circ_g.1 Os12g0128700_circ_g.2 Os12g0128700_circ_g.3 Os12g0128700_circ_igg.1 Os12g0128700_circ_g.2 Os12g0128700_circ_ag.1 Os12g0128700_circ_g.2 Os12g0128700_circ_g.3 Os12g0128700_circ_g.4 Os12g0128800_circ_g.2 Os12g0129000_circ_g.1 Os12g0129000_circ_g.2 Os12g0129300_circ_g.1 						
					
						Support reads
						1
					
						Tissues
						shoot
					
						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
						Os12t0128800-01:8
Os12t0128800-02:8

General Information
CircRNA Name	Os12g0128800_circ_g.1
ID in PlantcircBase	osa_circ_010413
Alias	NA
Organism	Oryza sativa
Position	chr12: 1369564-1371763 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer
Parent gene	Os12g0128800
Parent gene annotation	Similar to Arabinoxylan arabinofuranohydrolase isoenzyme AXAH-I. (Os12t0128800-01);Similar to cDNA clone:J033138B08, full insert sequence. (Os12t0128800-02)
Parent gene strand	+
Alternative splicing	Os12g0128700_circ_g.1 Os12g0128700_circ_g.2 Os12g0128700_circ_g.3 Os12g0128700_circ_igg.1 Os12g0128700_circ_g.2 Os12g0128700_circ_ag.1 Os12g0128700_circ_g.2 Os12g0128700_circ_g.3 Os12g0128700_circ_g.4 Os12g0128800_circ_g.2 Os12g0129000_circ_g.1 Os12g0129000_circ_g.2 Os12g0129300_circ_g.1
Support reads	1
Tissues	shoot
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	Os12t0128800-01:8 Os12t0128800-02:8

			
						 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  
						
							GGCTCTGTTAGAGCCACGATGGGGCACCCTGAACCATTCCCACTGAAGTATGTTGCACTAGGGA
ATGAAGATTGTGCTCCATTCAAGCTGATATACCGAGgttttgaagctggagccaacacatcaaa
cattgacccatggtccatcattggagatgaatcctctgttcacgtgacaactgatcgctcatcc
tgtttcag

									
								

					

						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
						
							GTTTTGAAGCTGGAGCCAACACATCAAACATTGACCCATGGTCCATCATTGGAGATGAATCCTC
TGTTCACGTGACAACTGATCGCTCATCCTGTTTCAGTCAAAATCCTGTTGCTGTAAGGATAGAG
GTTGTCTGTGACGATTGTCCAGCCGGTGGTGTTGGAATTTACAATCCAGGATTTTGGGGCATGG
TATGAGTTCTATCCATTTTTATAAGTGCATTCCTATATGAATAATATGCAAAATAGAGCTTGTA
ATTGAAAGTAGTATCCTTTTTTTTTACGACAGTTTACAATAAACAGTGCTGCCACAGAAAGAAA
CTATAGCAAAGTTATTTATTCTGTTCGAAATGGTGAAGAAAACAAATAATTAAGCTAACCTATT
TTTTGTTTGATTTCAATTTGCATTTATCTTTTCCTTGCATAATGCTGGTTTTTTATCAGATTGT
TGTGCATTGCTCTTGGAAAAGTGTAATCTATAGCTTTTCTTCGAACCGTTTTCATTTTACCTTC
TCATATTTTAATGGGATTTTACCTTCTGGTTTTGTGACGAATATGATCATTTCAATTTTCAGAA
TGTAGAAGAAGGAAAGGCATATAATCTGGTCATGCATATCAGATCATTAGAATCGGTGGAGTTG
ACAGCTTCACTCACATGCTCAAATGGATCGCAAAATCTTGCATCAAATTCTGTTCGGTATATAT
TTTTTCCGTAACACTGAGATAAAAAAGGTTTTTCAATCTCTCTCGCTCGTTCGCTCGCTAACCG
AAAGGATTGTACATCAAATTTCTGCAGAGAAACTAATTTGTCAACTTGGACAAAGATAGAGCTA
CAGTTACTAGCTCAAGGGACATGCAGAACTTCAAGACTTGAACTAACAACTAGGAAAAGGGGAG
TAATATGGCTTGATCAGGTGTCACTTATGCCTTCAGAAACATACAAGGTGCACTGTCTTTTACT
TTTTTATTGCTACTGTCATCATAGCTTGATCTGGAATCCGGTATCATCTTGTGAAGAATGGAGA
ATAGAATTCATGCACTGACCCCAAAGATTTTAGCCACTACACCATGCCAGGTTCAATGGACACC
CTGTTCAAATCATGTCTGCTATTTGATATTATTCAAACTTATTTAAAAAGGTCATCATAAAAAT
TATCAATTTATTCACATTGCTATCTGACAAGAAAAAAAAGTAAATTAACTTATCTGTAATCAGT
AATCCCGTAGAGATGGCAGATCGAGTTATTGTTCCTTAATCTACATTTGCTTACTATGAGTCCA
TAGGAGTTGTTGATCGACATTTTTCTTCTACATATGCAGGGCCATGGTTTTCGCAAGGAACTCA
TGTACATGCTTTTGGACTTAAAACCACGGTTTCTACGGTTTCCTGGTATTTCGAATGTTTTCCA
ACTGGCAATCAATTTCGGTTGCCCTGTAATTTAATCGCTCGCATTACATTTGGCAGGGGGTTGC
TTTGTCGAAGGCAATTGGTTAAAAAATGCATTCAGGTGGAAGGAAACTATTGGTCCATGGGAAG
AGAGACCTGGACACTATGGAGATGTCTGGCACTACTGGACGGATGATGGCCTTGGGTATTATGA
GTTACTCGAGGTATGGGTTGATTAATGTGAAATGGGTTTTTTCTTTTGGTCTCGGCATATCTCA
CCATTTGTTTACTTCAAAATGTTCATGAAAGCTTGCTGAAGACTTGGGTGCTAACCCTGTATGG
GTGCTCAACATTGGTAAATATCGTGTCTATTTGTCTTGTTCAATGTATTTTTAATCTTTGCACA
AACCAACGAACTGCTCAGGGTTTTTTATCTTGTAATTAGGGATGAGTCACCATGATGCAGTTAA
TGGAACTATGCTCGCACCTTTTATAAAGGTATGTTTTCGATGCCCTACATTTTTTGAAGTATGG
ATGAGATGAAGATGGACTTCTCATGATGTAACAGAAAACAGTTGTAACATGTGAATATTAACAT
AAGGCCTTGCATTTATTGTGATCCCATGTTTCTTATTTCGAGATGCTTTGATTTTCTTGCTACA
GGATGCAACTGACAGTCTTGAGTTTGCAAAGGGGAGTGACAAATCAACATGGGGCTCTGTTAGA
GCCACGATGGGGCACCCTGAACCATTCCCACTGAAGTATGTTGCACTAGGGAATGAAGATTGTG
CTCCATTCAAGCTGATATACCGAG
						
					

			
		

Sequences
Splice junction sequence	GGCTCTGTTAGAGCCACGATGGGGCACCCTGAACCATTCCCACTGAAGTATGTTGCACTAGGGA ATGAAGATTGTGCTCCATTCAAGCTGATATACCGAGgttttgaagctggagccaacacatcaaa cattgacccatggtccatcattggagatgaatcctctgttcacgtgacaactgatcgctcatcc tgtttcag
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	GTTTTGAAGCTGGAGCCAACACATCAAACATTGACCCATGGTCCATCATTGGAGATGAATCCTC TGTTCACGTGACAACTGATCGCTCATCCTGTTTCAGTCAAAATCCTGTTGCTGTAAGGATAGAG GTTGTCTGTGACGATTGTCCAGCCGGTGGTGTTGGAATTTACAATCCAGGATTTTGGGGCATGG TATGAGTTCTATCCATTTTTATAAGTGCATTCCTATATGAATAATATGCAAAATAGAGCTTGTA ATTGAAAGTAGTATCCTTTTTTTTTACGACAGTTTACAATAAACAGTGCTGCCACAGAAAGAAA CTATAGCAAAGTTATTTATTCTGTTCGAAATGGTGAAGAAAACAAATAATTAAGCTAACCTATT TTTTGTTTGATTTCAATTTGCATTTATCTTTTCCTTGCATAATGCTGGTTTTTTATCAGATTGT TGTGCATTGCTCTTGGAAAAGTGTAATCTATAGCTTTTCTTCGAACCGTTTTCATTTTACCTTC TCATATTTTAATGGGATTTTACCTTCTGGTTTTGTGACGAATATGATCATTTCAATTTTCAGAA TGTAGAAGAAGGAAAGGCATATAATCTGGTCATGCATATCAGATCATTAGAATCGGTGGAGTTG ACAGCTTCACTCACATGCTCAAATGGATCGCAAAATCTTGCATCAAATTCTGTTCGGTATATAT TTTTTCCGTAACACTGAGATAAAAAAGGTTTTTCAATCTCTCTCGCTCGTTCGCTCGCTAACCG AAAGGATTGTACATCAAATTTCTGCAGAGAAACTAATTTGTCAACTTGGACAAAGATAGAGCTA CAGTTACTAGCTCAAGGGACATGCAGAACTTCAAGACTTGAACTAACAACTAGGAAAAGGGGAG TAATATGGCTTGATCAGGTGTCACTTATGCCTTCAGAAACATACAAGGTGCACTGTCTTTTACT TTTTTATTGCTACTGTCATCATAGCTTGATCTGGAATCCGGTATCATCTTGTGAAGAATGGAGA ATAGAATTCATGCACTGACCCCAAAGATTTTAGCCACTACACCATGCCAGGTTCAATGGACACC CTGTTCAAATCATGTCTGCTATTTGATATTATTCAAACTTATTTAAAAAGGTCATCATAAAAAT TATCAATTTATTCACATTGCTATCTGACAAGAAAAAAAAGTAAATTAACTTATCTGTAATCAGT AATCCCGTAGAGATGGCAGATCGAGTTATTGTTCCTTAATCTACATTTGCTTACTATGAGTCCA TAGGAGTTGTTGATCGACATTTTTCTTCTACATATGCAGGGCCATGGTTTTCGCAAGGAACTCA TGTACATGCTTTTGGACTTAAAACCACGGTTTCTACGGTTTCCTGGTATTTCGAATGTTTTCCA ACTGGCAATCAATTTCGGTTGCCCTGTAATTTAATCGCTCGCATTACATTTGGCAGGGGGTTGC TTTGTCGAAGGCAATTGGTTAAAAAATGCATTCAGGTGGAAGGAAACTATTGGTCCATGGGAAG AGAGACCTGGACACTATGGAGATGTCTGGCACTACTGGACGGATGATGGCCTTGGGTATTATGA GTTACTCGAGGTATGGGTTGATTAATGTGAAATGGGTTTTTTCTTTTGGTCTCGGCATATCTCA CCATTTGTTTACTTCAAAATGTTCATGAAAGCTTGCTGAAGACTTGGGTGCTAACCCTGTATGG GTGCTCAACATTGGTAAATATCGTGTCTATTTGTCTTGTTCAATGTATTTTTAATCTTTGCACA AACCAACGAACTGCTCAGGGTTTTTTATCTTGTAATTAGGGATGAGTCACCATGATGCAGTTAA TGGAACTATGCTCGCACCTTTTATAAAGGTATGTTTTCGATGCCCTACATTTTTTGAAGTATGG ATGAGATGAAGATGGACTTCTCATGATGTAACAGAAAACAGTTGTAACATGTGAATATTAACAT AAGGCCTTGCATTTATTGTGATCCCATGTTTCTTATTTCGAGATGCTTTGATTTTCTTGCTACA GGATGCAACTGACAGTCTTGAGTTTGCAAAGGGGAGTGACAAATCAACATGGGGCTCTGTTAGA GCCACGATGGGGCACCCTGAACCATTCCCACTGAAGTATGTTGCACTAGGGAATGAAGATTGTG CTCCATTCAAGCTGATATACCGAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.108807848

Conservation Information
Conserved circRNAs	NA
PMCS	0.108807848

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							1369753-1371760(+)
1369614-1371404(-)
						
						Potential amino acid sequence
						
							MNVEEGKAYNLVMHIRSLESVELTASLTCSNGSQNLASNSVRETNLSTWTKIELQLLAQGTCRT
SRLELTTRKRGVIWLDQVSLMPSETYKGHGFRKELMYMLLDLKPRFLRFPGGCFVEGNWLKNAF
RWKETIGPWEERPGHYGDVWHYWTDDGLGYYELLELAEDLGANPVWVLNIGMSHHDAVNGTMLA
PFIKDATDSLEFAKGSDKSTWGSVRATMGHPEPFPLKYVALGNEDCAPFKLIYRGFEAGANTSN
IDPWSIIGDESSVHVTTDRSSCFSQNPVAVRIEVVCDDCPAGGVGIYNPGFWGMNVEEGKAYNL
VMHIRSLESVELTASLTCSNGSQNLASNSVRETNLSTWTKIELQLLAQGTCRTSRLELTTRKRG
VIWLDQVSLMPSETYKGHGFRKELMYMLLDLKPRFLRFPGGCFVEGNWLKNAFRWKETIGPWEE
RPGHYGDVWHYWTDDGLGYYELLELAEDLGANPVWVLNIGMSHHDAVNGTMLAPFIKDATDSLE
FAKGSDKSTWGSVRATMGHPEPFPLKYVALGNEDCAPFKLIYRGFEAGANTSNIDPWSIIGDES
SVHVTTDRSSCFSQNPVAVRIEVVCDDCPAGGVGIYNPGFWGMNVEEGKAYNLVMHIRSLESVE
LTASLTCSNGSQNLASNSVRETNLSTWTKIELQLLAQGTCRTSRLELTTRKRGVIWLDQVSLMP
SETYKGHGFRKELMYMLLDLKPRFLRFPGGCFVEGNWLKNAFRWKETIGPWEERPGHYGDVWHY
WTDDGLGYYELLELAEDLGANPVWVLNIGMSHHDAVNGTMLAPFIKDATDSLEFAKGSDKSTWG
SVRATMGHPEPFPLKYVALGNEDCAPFKLIYRGFEAGANTSNIDPWSIIGDESSVHVTTDRSSC
FSQNPVAVRIEVVCDDCPAGGVGIYNPGFWGMNVEEGKAYNLVMHIRSLESVELTASLTCSNGS
QNLASNSVRETNLSTWTKIELQLLAQGTCRTSRLELTTRKRGVIWLDQVSLMPSETYKGHGFRK
ELMYMLLDLKPRFLRFPGGCFVEGNWLKNAFRWKETIGPWEERPGHYGDVWHYWTDDGLGYYEL
LELAEDLGANPVWVLNIGMSHHDAVNGTMLAPFIKDATDSLEFAKGSDKSTWGSVRATMGHPEP
FPLKYVALGNEDCAPFKLIYR(+)
MMDHGSMFDVLAPASKPRYISLNGAQSSFPSATYFSGNGSGCPIVALTEPHVDLSLPFANSRLS
VASFIKGASIVPLTASW*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	1369753-1371760(+) 1369614-1371404(-)
Potential amino acid sequence	MNVEEGKAYNLVMHIRSLESVELTASLTCSNGSQNLASNSVRETNLSTWTKIELQLLAQGTCRT SRLELTTRKRGVIWLDQVSLMPSETYKGHGFRKELMYMLLDLKPRFLRFPGGCFVEGNWLKNAF RWKETIGPWEERPGHYGDVWHYWTDDGLGYYELLELAEDLGANPVWVLNIGMSHHDAVNGTMLA PFIKDATDSLEFAKGSDKSTWGSVRATMGHPEPFPLKYVALGNEDCAPFKLIYRGFEAGANTSN IDPWSIIGDESSVHVTTDRSSCFSQNPVAVRIEVVCDDCPAGGVGIYNPGFWGMNVEEGKAYNL VMHIRSLESVELTASLTCSNGSQNLASNSVRETNLSTWTKIELQLLAQGTCRTSRLELTTRKRG VIWLDQVSLMPSETYKGHGFRKELMYMLLDLKPRFLRFPGGCFVEGNWLKNAFRWKETIGPWEE RPGHYGDVWHYWTDDGLGYYELLELAEDLGANPVWVLNIGMSHHDAVNGTMLAPFIKDATDSLE FAKGSDKSTWGSVRATMGHPEPFPLKYVALGNEDCAPFKLIYRGFEAGANTSNIDPWSIIGDES SVHVTTDRSSCFSQNPVAVRIEVVCDDCPAGGVGIYNPGFWGMNVEEGKAYNLVMHIRSLESVE LTASLTCSNGSQNLASNSVRETNLSTWTKIELQLLAQGTCRTSRLELTTRKRGVIWLDQVSLMP SETYKGHGFRKELMYMLLDLKPRFLRFPGGCFVEGNWLKNAFRWKETIGPWEERPGHYGDVWHY WTDDGLGYYELLELAEDLGANPVWVLNIGMSHHDAVNGTMLAPFIKDATDSLEFAKGSDKSTWG SVRATMGHPEPFPLKYVALGNEDCAPFKLIYRGFEAGANTSNIDPWSIIGDESSVHVTTDRSSC FSQNPVAVRIEVVCDDCPAGGVGIYNPGFWGMNVEEGKAYNLVMHIRSLESVELTASLTCSNGS QNLASNSVRETNLSTWTKIELQLLAQGTCRTSRLELTTRKRGVIWLDQVSLMPSETYKGHGFRK ELMYMLLDLKPRFLRFPGGCFVEGNWLKNAFRWKETIGPWEERPGHYGDVWHYWTDDGLGYYEL LELAEDLGANPVWVLNIGMSHHDAVNGTMLAPFIKDATDSLEFAKGSDKSTWGSVRATMGHPEP FPLKYVALGNEDCAPFKLIYR(+) MMDHGSMFDVLAPASKPRYISLNGAQSSFPSATYFSGNGSGCPIVALTEPHVDLSLPFANSRLS VASFIKGASIVPLTASW*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os12g0128800_circ_g.1

Address

Any questions?

Supported by