Plant Circular RNA Database

Detail information of Os07g0204900_circ_g.5

			
						 General Information
					
						CircRNA Name
						Os07g0204900_circ_g.5
					
						ID in PlantcircBase
						osa_circ_033156
					
						Alias
						Os_ciR11287
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr7: 5648485-5648900  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os07g0204900						
					
						Parent gene annotation
						
							Similar to Zeta-carotene desaturase (Fragment). (Os07t0204900-01
);Similar to Zeta-carotene desaturase. (Os07t0204900-02);Similar
 to Zeta-carotene desaturase. (Os07t0204900-03)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os07g0204900_circ_g.3 Os07g0204900_circ_g.4 Os07g0204900_circ_g.6 Os07g0204900_circ_g.7 Os07g0204900_circ_g.8 Os07g0204900_circ_g.9 						
					
						Support reads
						2/1
					
						Tissues
						root/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
						Os07t0204900-01:2
Os07t0204900-03:2
Os07t0204900-02:2

General Information
CircRNA Name	Os07g0204900_circ_g.5
ID in PlantcircBase	osa_circ_033156
Alias	Os_ciR11287
Organism	Oryza sativa
Position	chr7: 5648485-5648900 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os07g0204900
Parent gene annotation	Similar to Zeta-carotene desaturase (Fragment). (Os07t0204900-01 );Similar to Zeta-carotene desaturase. (Os07t0204900-02);Similar to Zeta-carotene desaturase. (Os07t0204900-03)
Parent gene strand	+
Alternative splicing	Os07g0204900_circ_g.3 Os07g0204900_circ_g.4 Os07g0204900_circ_g.6 Os07g0204900_circ_g.7 Os07g0204900_circ_g.8 Os07g0204900_circ_g.9
Support reads	2/1
Tissues	root/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	Os07t0204900-01:2 Os07t0204900-03:2 Os07t0204900-02:2

			
						 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  
						
							CAAATCCTTCAGGTTTCACCTGAGGTGGGGATGTAGGGAGGTTCTCTATGATAAGTCACCTGAT
GGGGAAACCTATGTTAAAGGCCTTCTCCTATCCAAGgtaagtttcagcgattggttcttgtcga
aaggtggtactcgagagagcatcacaaggatgtgggatcctgttgcctatgctcttggtttcat
tgactgtg

						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: 333
Transcript exons: 5648485-5648729,5648813-5648900
GTAAGTTTCAGCGATTGGTTCTTGTCGAAAGGTGGTACTCGAGAGAGCATCACAAGGATGTGGG
ATCCTGTTGCCTATGCTCTTGGTTTCATTGACTGTGATAATATCAGTGCACGTTGCATGCTTAC
CATTTTCACTCTGTTTGCCACAAAAACAGAGGCATCTTTATTACGCATGCTAAAGGGTTCACCT
GATGTTTATCTGAGTGGTCCAATAAAGAAGTACATAACAGACAGGGGTGGTAGGTTTCACCTGA
GGTGGGGATGTAGGGAGGTTCTCTATGATAAGTCACCTGATGGGGAAACCTATGTTAAAGGCCT
TCTCCTATCCAAG
						
						Genomic sequence
						
							GTAAGTTTCAGCGATTGGTTCTTGTCGAAAGGTGGTACTCGAGAGAGCATCACAAGGATGTGGG
ATCCTGTTGCCTATGCTCTTGGTTTCATTGACTGTGATAATATCAGTGCACGTTGCATGCTTAC
CATTTTCACTCTGTTTGCCACAAAAACAGAGGCATCTTTATTACGCATGCTAAAGGGTTCACCT
GATGTTTATCTGAGTGGTCCAATAAAGAAGTACATAACAGACAGGGGTGGTAGGTATGATGGCA
AAGACCGAAATTTGTTTTGCATTAGTATGTACTGCACCGTTGAAAGCTTACATCATTTAACAAA
TCCTTCAGGTTTCACCTGAGGTGGGGATGTAGGGAGGTTCTCTATGATAAGTCACCTGATGGGG
AAACCTATGTTAAAGGCCTTCTCCTATCCAAG

Sequences
Splice junction sequence	CAAATCCTTCAGGTTTCACCTGAGGTGGGGATGTAGGGAGGTTCTCTATGATAAGTCACCTGAT GGGGAAACCTATGTTAAAGGCCTTCTCCTATCCAAGgtaagtttcagcgattggttcttgtcga aaggtggtactcgagagagcatcacaaggatgtgggatcctgttgcctatgctcttggtttcat tgactgtg
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: 333 Transcript exons: 5648485-5648729,5648813-5648900 GTAAGTTTCAGCGATTGGTTCTTGTCGAAAGGTGGTACTCGAGAGAGCATCACAAGGATGTGGG ATCCTGTTGCCTATGCTCTTGGTTTCATTGACTGTGATAATATCAGTGCACGTTGCATGCTTAC CATTTTCACTCTGTTTGCCACAAAAACAGAGGCATCTTTATTACGCATGCTAAAGGGTTCACCT GATGTTTATCTGAGTGGTCCAATAAAGAAGTACATAACAGACAGGGGTGGTAGGTTTCACCTGA GGTGGGGATGTAGGGAGGTTCTCTATGATAAGTCACCTGATGGGGAAACCTATGTTAAAGGCCT TCTCCTATCCAAG
Genomic sequence	GTAAGTTTCAGCGATTGGTTCTTGTCGAAAGGTGGTACTCGAGAGAGCATCACAAGGATGTGGG ATCCTGTTGCCTATGCTCTTGGTTTCATTGACTGTGATAATATCAGTGCACGTTGCATGCTTAC CATTTTCACTCTGTTTGCCACAAAAACAGAGGCATCTTTATTACGCATGCTAAAGGGTTCACCT GATGTTTATCTGAGTGGTCCAATAAAGAAGTACATAACAGACAGGGGTGGTAGGTATGATGGCA AAGACCGAAATTTGTTTTGCATTAGTATGTACTGCACCGTTGAAAGCTTACATCATTTAACAAA TCCTTCAGGTTTCACCTGAGGTGGGGATGTAGGGAGGTTCTCTATGATAAGTCACCTGATGGGG AAACCTATGTTAAAGGCCTTCTCCTATCCAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_007089* osi_circ_017633 						
					
						PMCS
						0.576210457

Conservation Information
Conserved circRNAs	osi_circ_007089* osi_circ_017633
PMCS	0.576210457

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							5648543-5648897(+)
5648536-5648875(-)
						
						Potential amino acid sequence
						
							MWDPVAYALGFIDCDNISARCMLTIFTLFATKTEASLLRMLKGSPDVYLSGPIKKYITDRGGRF
HLRWGCREVLYDKSPDGETYVKGLLLSKVSFSDWFLSKGGTRESITRMWDPVAYALGFIDCDNI
SARCMLTIFTLFATKTEASLLRMLKGSPDVYLSGPIKKYITDRGGRFHLRWGCREVLYDKSPDG
ETYVKGLLLSKVSFSDWFLSKGGTRESITRMWDPVAYALGFIDCDNISARCMLTIFTLFATKTE
ASLLRMLKGSPDVYLSGPIKKYITDRGGRFHLRWGCREVLYDKSPDGETYVKGLLLSKVSFSDW
FLSKGGTRESITRMWDPVAYALGFIDCDNISARCMLTIFTLFATKTEASLLRMLKGSPDVYLSG
PIKKYITDRGGRFHLRWGCREVLYDKSPDGETYVKGLLLSK(+)
MLSRVPPFDKNQSLKLTLDRRRPLT*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	5648543-5648897(+) 5648536-5648875(-)
Potential amino acid sequence	MWDPVAYALGFIDCDNISARCMLTIFTLFATKTEASLLRMLKGSPDVYLSGPIKKYITDRGGRF HLRWGCREVLYDKSPDGETYVKGLLLSKVSFSDWFLSKGGTRESITRMWDPVAYALGFIDCDNI SARCMLTIFTLFATKTEASLLRMLKGSPDVYLSGPIKKYITDRGGRFHLRWGCREVLYDKSPDG ETYVKGLLLSKVSFSDWFLSKGGTRESITRMWDPVAYALGFIDCDNISARCMLTIFTLFATKTE ASLLRMLKGSPDVYLSGPIKKYITDRGGRFHLRWGCREVLYDKSPDGETYVKGLLLSKVSFSDW FLSKGGTRESITRMWDPVAYALGFIDCDNISARCMLTIFTLFATKTEASLLRMLKGSPDVYLSG PIKKYITDRGGRFHLRWGCREVLYDKSPDGETYVKGLLLSK(+) MLSRVPPFDKNQSLKLTLDRRRPLT*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015;Chu et al., 2017

circRNA

Detail information of Os07g0204900_circ_g.5

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