Plant Circular RNA Database

Detail information of Os04g0449900_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os04g0449900_circ_g.1
					
						ID in PlantcircBase
						osa_circ_024013
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr4: 22415879-22417423  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os04g0449900						
					
						Parent gene annotation
						
							Similar to RNA Binding Protein 47. (Os04t0449900-01);Non-protein
 coding transcript. (Os04t0449900-02)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						2
					
						Tissues
						shoot, 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
						Os04t0449900-01:4

General Information
CircRNA Name	Os04g0449900_circ_g.1
ID in PlantcircBase	osa_circ_024013
Alias	NA
Organism	Oryza sativa
Position	chr4: 22415879-22417423 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os04g0449900
Parent gene annotation	Similar to RNA Binding Protein 47. (Os04t0449900-01);Non-protein coding transcript. (Os04t0449900-02)
Parent gene strand	+
Alternative splicing	NA
Support reads	2
Tissues	shoot, 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	Os04t0449900-01:4

			
						 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  
						
							TAGAACTGATGCGGAAGAAGCACTGCAAGGATTGAATGGATCAGTCATTGGAAAGCAGGCAGTT
CGCCTTTCATGGGGCCGCAGCCCATCACATAAACAGgtagtgacgataaaagttatccgcaata
gacaaactggacaatccgagggatatggttttgtagagttctactctcacggatcggcagagaa
ggctcttc

									
								

					

						Assembled circRNA sequence  
						
							Yes
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
						
							Transcript length: 738
Transcript exons: 22415879-22416332,22416969-22417024,22417108-22417238,22
417327-22417423
GTAGTGACGATAAAAGTTATCCGCAATAGACAAACTGGACAATCCGAGGGATATGGTTTTGTAG
AGTTCTACTCTCACGGATCGGCAGAGAAGGCTCTTCAGAATTTTACTGGTCATGTGATGCCTAA
CACTGATCGACCTTTCAAGTTAAACTGGGCTTCATATAGCATGGGTGAAAAGCGATCTGAAGTT
GCTTCTGACTACTCAATTTTCGTTGGTGATCTAGCTGCTGATGTTACTGATGAAATGTTGATGG
AGCTTTTTGCTAATAAGTACCGCTCTGTGAAAGGAGCTAAAGTTATTATTGATGCAAACACAGG
CCGTTCTAGGGGCTATGGGTTTGTTAGATTTGGAGATGACAATGACAAATCCCATGCAATGACT
GAAATGAATGGTGCGTATTGCTCTACTAGGCCAATTCGTATTGGACCTGCAACTCCCAGAAGGT
CTTCAGGTGATTCTGGCTCCTCAACACCTGGGCATTCAGATGGCGATTCTACTAACAGAACGGT
ATATGTTGGTGGGCTCGATCCAAATGTCAGCGAAGATGAGCTGAGGAAGGCATTTGCCAAATAT
GGTGATGTTGCCTCTGTAAAAATTCCTCTAGGGAAGCAATGTGGCTTTGTTCAATTCGTCAGCA
GAACTGATGCGGAAGAAGCACTGCAAGGATTGAATGGATCAGTCATTGGAAAGCAGGCAGTTCG
CCTTTCATGGGGCCGCAGCCCATCACATAAACAG
						
					

						Genomic sequence
						
							GTAGTGACGATAAAAGTTATCCGCAATAGACAAACTGGACAATCCGAGGGATATGGTTTTGTAG
AGTTCTACTCTCACGGATCGGCAGAGAAGGCTCTTCAGAATTTTACTGGTCATGTGATGCCTAA
CACTGATCGACCTTTCAAGTTAAACTGGGCTTCATATAGCATGGGTGAAAAGCGATCTGAAGTT
GCTTCTGACTACTCAATTTTCGTTGGTGATCTAGCTGCTGATGTTACTGATGAAATGTTGATGG
AGCTTTTTGCTAATAAGTACCGCTCTGTGAAAGGAGCTAAAGTTATTATTGATGCAAACACAGG
CCGTTCTAGGGGCTATGGGTTTGTTAGATTTGGAGATGACAATGACAAATCCCATGCAATGACT
GAAATGAATGGTGCGTATTGCTCTACTAGGCCAATTCGTATTGGACCTGCAACTCCCAGAAGGT
CTTCAGGTATGTCTCCTATTTCCTGATTTTTTTAGCACTTTGATATTGCAACTCCTATTTTGTC
CATGGACCGTCTGATGTTTTATGTTATTAGTAGTTTGGCTTGTACTCAATTTGAGCTATTTTTT
GTCAGATTATTAAGTATCACTAAAAATTTTGGAAGGTCTGAATTGTTTTTTCACCTTGTACCCT
CCTAATGTTGCTTAATTATACATCTATTACCCCCAACTATTTTTTTGGAACACATAGTGAAGTT
CTAATAAATAACGAATTTGTCCTGTTATTTATCTGGACCCATGCCTTGAAGACCACTTGCAAGT
TGCAAGATGAGAAATTAAAGAATTGTACCTGCCAAGCAAGATCCTCTTCATGGGGATCCCATCT
CGTGGCTAGTGTTTCTAATATTTGGTGGCTTCAGCTTCTCTAACTGCCCCTTGAATTACTTACT
ATAGGTTCCTATCTTCATAATCATTGCTTCACAGCACTAGATTGAATAAAGTTTAGTTAATGTT
CCCAGAGCATATTATGTATGACGTACTTATGTATCTTGCTTTTGTGTAGGGTGCTATACATTTG
TTTTAGTGTTGTATGGAATCAGTTTGGTTTAATCATTTGTTTACCCAGCTTCACTATTATCTTC
AGGTGATTCTGGCTCCTCAACACCTGGGCATTCAGATGGCGATTCTACTAACAGAACGGTGTGT
GGTACTACTGGTTTTCCACGGTGTTTGTCACCCTGTTGCCTGATAATTTCTAATATGTAGTTGT
TGATCTCCTTTAGGTATATGTTGGTGGGCTCGATCCAAATGTCAGCGAAGATGAGCTGAGGAAG
GCATTTGCCAAATATGGTGATGTTGCCTCTGTAAAAATTCCTCTAGGGAAGCAATGTGGCTTTG
TTCAATTCGTCAGCAGGTATGTATCTGAGGCTGTTCTTATTTGGCTACTTAGTTTTATATGACA
TGCTGGAGATGGTATTTAAGTCTTGCAACTATGTCTTTAGAACTGATGCGGAAGAAGCACTGCA
AGGATTGAATGGATCAGTCATTGGAAAGCAGGCAGTTCGCCTTTCATGGGGCCGCAGCCCATCA
CATAAACAG
						
					

			
		

Sequences
Splice junction sequence	TAGAACTGATGCGGAAGAAGCACTGCAAGGATTGAATGGATCAGTCATTGGAAAGCAGGCAGTT CGCCTTTCATGGGGCCGCAGCCCATCACATAAACAGgtagtgacgataaaagttatccgcaata gacaaactggacaatccgagggatatggttttgtagagttctactctcacggatcggcagagaa ggctcttc
Assembled circRNA sequence	Yes 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	Transcript length: 738 Transcript exons: 22415879-22416332,22416969-22417024,22417108-22417238,22 417327-22417423 GTAGTGACGATAAAAGTTATCCGCAATAGACAAACTGGACAATCCGAGGGATATGGTTTTGTAG AGTTCTACTCTCACGGATCGGCAGAGAAGGCTCTTCAGAATTTTACTGGTCATGTGATGCCTAA CACTGATCGACCTTTCAAGTTAAACTGGGCTTCATATAGCATGGGTGAAAAGCGATCTGAAGTT GCTTCTGACTACTCAATTTTCGTTGGTGATCTAGCTGCTGATGTTACTGATGAAATGTTGATGG AGCTTTTTGCTAATAAGTACCGCTCTGTGAAAGGAGCTAAAGTTATTATTGATGCAAACACAGG CCGTTCTAGGGGCTATGGGTTTGTTAGATTTGGAGATGACAATGACAAATCCCATGCAATGACT GAAATGAATGGTGCGTATTGCTCTACTAGGCCAATTCGTATTGGACCTGCAACTCCCAGAAGGT CTTCAGGTGATTCTGGCTCCTCAACACCTGGGCATTCAGATGGCGATTCTACTAACAGAACGGT ATATGTTGGTGGGCTCGATCCAAATGTCAGCGAAGATGAGCTGAGGAAGGCATTTGCCAAATAT GGTGATGTTGCCTCTGTAAAAATTCCTCTAGGGAAGCAATGTGGCTTTGTTCAATTCGTCAGCA GAACTGATGCGGAAGAAGCACTGCAAGGATTGAATGGATCAGTCATTGGAAAGCAGGCAGTTCG CCTTTCATGGGGCCGCAGCCCATCACATAAACAG
Genomic sequence	GTAGTGACGATAAAAGTTATCCGCAATAGACAAACTGGACAATCCGAGGGATATGGTTTTGTAG AGTTCTACTCTCACGGATCGGCAGAGAAGGCTCTTCAGAATTTTACTGGTCATGTGATGCCTAA CACTGATCGACCTTTCAAGTTAAACTGGGCTTCATATAGCATGGGTGAAAAGCGATCTGAAGTT GCTTCTGACTACTCAATTTTCGTTGGTGATCTAGCTGCTGATGTTACTGATGAAATGTTGATGG AGCTTTTTGCTAATAAGTACCGCTCTGTGAAAGGAGCTAAAGTTATTATTGATGCAAACACAGG CCGTTCTAGGGGCTATGGGTTTGTTAGATTTGGAGATGACAATGACAAATCCCATGCAATGACT GAAATGAATGGTGCGTATTGCTCTACTAGGCCAATTCGTATTGGACCTGCAACTCCCAGAAGGT CTTCAGGTATGTCTCCTATTTCCTGATTTTTTTAGCACTTTGATATTGCAACTCCTATTTTGTC CATGGACCGTCTGATGTTTTATGTTATTAGTAGTTTGGCTTGTACTCAATTTGAGCTATTTTTT GTCAGATTATTAAGTATCACTAAAAATTTTGGAAGGTCTGAATTGTTTTTTCACCTTGTACCCT CCTAATGTTGCTTAATTATACATCTATTACCCCCAACTATTTTTTTGGAACACATAGTGAAGTT CTAATAAATAACGAATTTGTCCTGTTATTTATCTGGACCCATGCCTTGAAGACCACTTGCAAGT TGCAAGATGAGAAATTAAAGAATTGTACCTGCCAAGCAAGATCCTCTTCATGGGGATCCCATCT CGTGGCTAGTGTTTCTAATATTTGGTGGCTTCAGCTTCTCTAACTGCCCCTTGAATTACTTACT ATAGGTTCCTATCTTCATAATCATTGCTTCACAGCACTAGATTGAATAAAGTTTAGTTAATGTT CCCAGAGCATATTATGTATGACGTACTTATGTATCTTGCTTTTGTGTAGGGTGCTATACATTTG TTTTAGTGTTGTATGGAATCAGTTTGGTTTAATCATTTGTTTACCCAGCTTCACTATTATCTTC AGGTGATTCTGGCTCCTCAACACCTGGGCATTCAGATGGCGATTCTACTAACAGAACGGTGTGT GGTACTACTGGTTTTCCACGGTGTTTGTCACCCTGTTGCCTGATAATTTCTAATATGTAGTTGT TGATCTCCTTTAGGTATATGTTGGTGGGCTCGATCCAAATGTCAGCGAAGATGAGCTGAGGAAG GCATTTGCCAAATATGGTGATGTTGCCTCTGTAAAAATTCCTCTAGGGAAGCAATGTGGCTTTG TTCAATTCGTCAGCAGGTATGTATCTGAGGCTGTTCTTATTTGGCTACTTAGTTTTATATGACA TGCTGGAGATGGTATTTAAGTCTTGCAACTATGTCTTTAGAACTGATGCGGAAGAAGCACTGCA AGGATTGAATGGATCAGTCATTGGAAAGCAGGCAGTTCGCCTTTCATGGGGCCGCAGCCCATCA CATAAACAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_014417 						
					
						PMCS
						0.391509919

Conservation Information
Conserved circRNAs	osi_circ_014417
PMCS	0.391509919

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							22416000-22417420(+)
22417360-22415879(+)
22415997-22417414(-)
						
						Potential amino acid sequence
						
							MPNTDRPFKLNWASYSMGEKRSEVASDYSIFVGDLAADVTDEMLMELFANKYRSVKGAKVIIDA
NTGRSRGYGFVRFGDDNDKSHAMTEMNGAYCSTRPIRIGPATPRRSSGDSGSSTPGHSDGDSTN
RTVYVGGLDPNVSEDELRKAFAKYGDVASVKIPLGKQCGFVQFVSRTDAEEALQGLNGSVIGKQ
AVRLSWGRSPSHKQVVTIKVIRNRQTGQSEGYGFVEFYSHGSAEKALQNFTGHVMPNTDRPFKL
NWASYSMGEKRSEVASDYSIFVGDLAADVTDEMLMELFANKYRSVKGAKVIIDANTGRSRGYGF
VRFGDDNDKSHAMTEMNGAYCSTRPIRIGPATPRRSSGDSGSSTPGHSDGDSTNRTVYVGGLDP
NVSEDELRKAFAKYGDVASVKIPLGKQCGFVQFVSRTDAEEALQGLNGSVIGKQAVRLSWGRSP
SHKQVVTIKVIRNRQTGQSEGYGFVEFYSHGSAEKALQNFTGHVMPNTDRPFKLNWASYSMGEK
RSEVASDYSIFVGDLAADVTDEMLMELFANKYRSVKGAKVIIDANTGRSRGYGFVRFGDDNDKS
HAMTEMNGAYCSTRPIRIGPATPRRSSGDSGSSTPGHSDGDSTNRTVYVGGLDPNVSEDELRKA
FAKYGDVASVKIPLGKQCGFVQFVSRTDAEEALQGLNGSVIGKQAVRLSWGRSPSHKQVVTIKV
IRNRQTGQSEGYGFVEFYSHGSAEKALQNFTGHVMPNTDRPFKLNWASYSMGEKRSEVASDYSI
FVGDLAADVTDEMLMELFANKYRSVKGAKVIIDANTGRSRGYGFVRFGDDNDKSHAMTEMNGAY
CSTRPIRIGPATPRRSSGDSGSSTPGHSDGDSTNRTVYVGGLDPNVSEDELRKAFAKYGDVASV
KIPLGKQCGFVQFVSRTDAEEALQGLNGSVIGKQAVRLSWGRSPSHKQ(+)
MDQSLESRQFAFHGAAAHHINR*(+)
MTSKILKSLLCRSVRVELYKTISLGLSSLSIADNFYRHYLFM*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	22416000-22417420(+) 22417360-22415879(+) 22415997-22417414(-)
Potential amino acid sequence	MPNTDRPFKLNWASYSMGEKRSEVASDYSIFVGDLAADVTDEMLMELFANKYRSVKGAKVIIDA NTGRSRGYGFVRFGDDNDKSHAMTEMNGAYCSTRPIRIGPATPRRSSGDSGSSTPGHSDGDSTN RTVYVGGLDPNVSEDELRKAFAKYGDVASVKIPLGKQCGFVQFVSRTDAEEALQGLNGSVIGKQ AVRLSWGRSPSHKQVVTIKVIRNRQTGQSEGYGFVEFYSHGSAEKALQNFTGHVMPNTDRPFKL NWASYSMGEKRSEVASDYSIFVGDLAADVTDEMLMELFANKYRSVKGAKVIIDANTGRSRGYGF VRFGDDNDKSHAMTEMNGAYCSTRPIRIGPATPRRSSGDSGSSTPGHSDGDSTNRTVYVGGLDP NVSEDELRKAFAKYGDVASVKIPLGKQCGFVQFVSRTDAEEALQGLNGSVIGKQAVRLSWGRSP SHKQVVTIKVIRNRQTGQSEGYGFVEFYSHGSAEKALQNFTGHVMPNTDRPFKLNWASYSMGEK RSEVASDYSIFVGDLAADVTDEMLMELFANKYRSVKGAKVIIDANTGRSRGYGFVRFGDDNDKS HAMTEMNGAYCSTRPIRIGPATPRRSSGDSGSSTPGHSDGDSTNRTVYVGGLDPNVSEDELRKA FAKYGDVASVKIPLGKQCGFVQFVSRTDAEEALQGLNGSVIGKQAVRLSWGRSPSHKQVVTIKV IRNRQTGQSEGYGFVEFYSHGSAEKALQNFTGHVMPNTDRPFKLNWASYSMGEKRSEVASDYSI FVGDLAADVTDEMLMELFANKYRSVKGAKVIIDANTGRSRGYGFVRFGDDNDKSHAMTEMNGAY CSTRPIRIGPATPRRSSGDSGSSTPGHSDGDSTNRTVYVGGLDPNVSEDELRKAFAKYGDVASV KIPLGKQCGFVQFVSRTDAEEALQGLNGSVIGKQAVRLSWGRSPSHKQ(+) MDQSLESRQFAFHGAAAHHINR(+) MTSKILKSLLCRSVRVELYKTISLGLSSLSIADNFYRHYLFM(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os04g0449900_circ_g.1

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