Plant Circular RNA Database

Detail information of BGIOSGA013864_circ_g.3

			
						 General Information
					
						CircRNA Name
						BGIOSGA013864_circ_g.3
					
						ID in PlantcircBase
						osi_circ_005225
					
						Alias
						3:39181302|39183732
					
						Organism
						
							Oryza sativa ssp. indica						
					
						Position
						
							chr3: 39181302-39183732  JBrowse»						
					
						Reference genome
						
							Oryza_indica.ASM465v1.42						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							BGIOSGA013864						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						+
					
						Alternative splicing
						
							BGIOSGA013864_circ_g.1 BGIOSGA013864_circ_g.2 BGIOSGA013864_circ_g.4 BGIOSGA013864_circ_g.5 BGIOSGA013864_circ_g.6 BGIOSGA013864_circ_g.7 BGIOSGA013864_circ_g.8 BGIOSGA013864_circ_g.9 						
					
						Support reads
						NA
					
						Tissues
						leaf
					
						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
						BGIOSGA013864-TA:5

General Information
CircRNA Name	BGIOSGA013864_circ_g.3
ID in PlantcircBase	osi_circ_005225
Alias	3:39181302\|39183732
Organism	Oryza sativa ssp. indica
Position	chr3: 39181302-39183732 JBrowse»
Reference genome	Oryza_indica.ASM465v1.42
Type	e-circRNA
Identification method	find_circ
Parent gene	BGIOSGA013864
Parent gene annotation	NA
Parent gene strand	+
Alternative splicing	BGIOSGA013864_circ_g.1 BGIOSGA013864_circ_g.2 BGIOSGA013864_circ_g.4 BGIOSGA013864_circ_g.5 BGIOSGA013864_circ_g.6 BGIOSGA013864_circ_g.7 BGIOSGA013864_circ_g.8 BGIOSGA013864_circ_g.9
Support reads	NA
Tissues	leaf
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	BGIOSGA013864-TA:5

			
						 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  
						
							GCAAGAAGAATTAGGACCTAATGCTCTTGCTTCTGCATTGGCACATCTGAGTGGATTTTCTCAG
CCACCCTCTTCACGTTCTCTTATCAGTCATGAGCAGagggctgtattgattccagctcttgacg
gccgtgacctgattgctagagcaaagacaggaaccgggaagacgctagccttcggcattcccat
gatcaagc

									
								

					

						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
						
							AGGGCTGTATTGATTCCAGCTCTTGACGGCCGTGACCTGATTGCTAGAGCAAAGACAGGAACCG
GGAAGACGCTAGCCTTCGGCATTCCCATGATCAAGCAATTAATGGAGGAGGATGATGGACGGAG
TGTGAGGTATCCATTCATCTTCCTATGCAGCTTCACATTGTATTGCATGACAATCAGTTGATAC
TTAACAAGTGCATTAACCCTTTTTTTTTCCCTTTTGGTAGGCGAGGTCGTATTCCTCGTGTTTT
GGTTCTAGCACCTACTAGGGAGTTAGCCAAGCAAGTTGAGAAGGAAATAAAAGAATCAGCACCC
AAGCTCAGTACAGTCTGTGTTTATGGAGGTGTCTCATATAATGTCCAGCAGAACGCACTCTCCC
GTGGTGTTGATGTTGTTGTAGGAACACCTGGTCGCATTATTGATTTGATAAATGGCGGAAGTCT
TCAGTTGGGAGAAGTTAAGTACTTGGTCCTTGATGAGGCTGACCAAATGCTCGCAGTTGGGTTT
GAGGAGGATGTGGAAACGATATTACAACAGCTACCAGCTGAGAGGCAAAGCATGCTCTTCTCTG
CCACCATGCCTGGTTGGGTGAAGAAATTATCTAGGCGATACTTGAACAATCCTTTGACAATTGA
CTTGGTATGAACTTCGTATTTCCTTCCATTTCCATTTTTATTGGTGTGAAACATGTCACTCTTG
TTATTTTTATTTGGTTATGCCCTCAAACAAAAACATTCCAGGAATCAGTTTCATCTAGTATAAG
AGCATTCTTACATTTAATCACAGATATCATTTTGATTTTCCAAGATCAGATGTGTCAGTTGTTA
TGATCATGTTATATGCTGTAAAAATAGTAAATACAAATTCTGTCCAGCACACATGTAAGAGGAT
TAAGAGATATTAGCACTGGTCTTGAGTATGCTAATTGCACTTACACTTGAATACCTGTTGTTTC
TTGCAAGATATAATTGTGCACATGTTCTGTGAAGGTTTACTTTTATTTTTTTTGTCTGGATTAG
TCATCTTTTATTGTCATGTGTATACTCAGGTCGGCGATCAAGATGAAAAACTTGCTGAAGGAAT
CAAACTTTATGCTATCCCGCTCACATCTACATCAAAGCGCACTGTTCTTAGTGATCTCATTACG
GTATGTTATTGCAGTTCATGGATTTTTTAGCTGCCTTTTCCCCTCCTCTCTTTTCGGCTCAGCC
TCCTGAGATTCAGAAACTAATAAGATCATGAAACCAGTTACAGTTTATACAGCTATGTTGGTGT
ATCATCATGCCAGTAGATGCCCGATAAGTTTTTTTTTTTTTTTTACTTCAATCCAATTAAGATT
TCAGAACATAATTCATTCATACATCTTCCATGTCTATCGAACTTTTTACTGACTTTATAACTAG
TCTGTTTTGCTGAGCGTTGGCCACTCAATTATCTAAAAATATCTTGTTATCAGGTGTATGCAAA
GGGTGGGAAAACCATTGTGTTCACCAAGACGAAAAGGGATGCAGACGAGGTATCATTAGCACTG
ACAAACAGTATTGCTTCGGAGGCACTGCATGGTGATATTTCTCAGCATCAGCGTGAGAGGACAC
TAAATGGTTTTCGTCAAGGGAAATTTACTGTTCTCGTAGCAACCGATGTTGCTGCCCGTGGTCT
TGATATACCGAATGTTGATTTGGTGGGTTCACATATCCTCTTCACTTCATTTGATTCTAGATAT
TGTAATTCTGTAAATCACCCTTCCTCACAGATCTTAACTCTTTCCTTTCCATAAAGCGATTATC
AGTGAAGCTTCTGAGTTTTAAACTCCATTATTATTTACAGTGCTAAAATTAGATCATCAAACTG
TCCATTTTCCCCCCTGAACTTAGGTTTTTGTATTGAAATATCATCTAGCTTTGATGTGTTTTAT
AGCATCTCAATCTGATATCTTGGGTTAATCTTACGACTAGTTAACAAATTAACTGCATTCGAGC
ATTATGCTATCTGGGATGAACTGTAGGTGTGTATGGATCAATTAACGAGAGGATTTCATTTTAA
TGCAGATTATCCATTATGAATTGCCCAATGATCCAGAGACTTTTGTTCATCGTTCTGGACGCAC
TGGCCGAGCTGGGAAAGCAGGAACTGCAATCTTGATGTTCACAAACAGCCAGAGAAGGACAGTT
AGATCACTTGAGCGTGATGTTGGATGCAGATTTGACTTCATAAGTCCTCCAGCAATTGAGGATG
TGCTGGAGTCCTCTGCTGAACATGTCATAGCTACTTTAAGAGGTGTGCACACGGAGTCGATTCA
GTACTTCATTCCAGCAGCTGAAAGACTGCAAGAAGAATTAGGACCTAATGCTCTTGCTTCTGCA
TTGGCACATCTGAGTGGATTTTCTCAGCCACCCTCTTCACGTTCTCTTATCAGTCATGAGCAG
						
					

			
		

Sequences
Splice junction sequence	GCAAGAAGAATTAGGACCTAATGCTCTTGCTTCTGCATTGGCACATCTGAGTGGATTTTCTCAG CCACCCTCTTCACGTTCTCTTATCAGTCATGAGCAGagggctgtattgattccagctcttgacg gccgtgacctgattgctagagcaaagacaggaaccgggaagacgctagccttcggcattcccat gatcaagc
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	AGGGCTGTATTGATTCCAGCTCTTGACGGCCGTGACCTGATTGCTAGAGCAAAGACAGGAACCG GGAAGACGCTAGCCTTCGGCATTCCCATGATCAAGCAATTAATGGAGGAGGATGATGGACGGAG TGTGAGGTATCCATTCATCTTCCTATGCAGCTTCACATTGTATTGCATGACAATCAGTTGATAC TTAACAAGTGCATTAACCCTTTTTTTTTCCCTTTTGGTAGGCGAGGTCGTATTCCTCGTGTTTT GGTTCTAGCACCTACTAGGGAGTTAGCCAAGCAAGTTGAGAAGGAAATAAAAGAATCAGCACCC AAGCTCAGTACAGTCTGTGTTTATGGAGGTGTCTCATATAATGTCCAGCAGAACGCACTCTCCC GTGGTGTTGATGTTGTTGTAGGAACACCTGGTCGCATTATTGATTTGATAAATGGCGGAAGTCT TCAGTTGGGAGAAGTTAAGTACTTGGTCCTTGATGAGGCTGACCAAATGCTCGCAGTTGGGTTT GAGGAGGATGTGGAAACGATATTACAACAGCTACCAGCTGAGAGGCAAAGCATGCTCTTCTCTG CCACCATGCCTGGTTGGGTGAAGAAATTATCTAGGCGATACTTGAACAATCCTTTGACAATTGA CTTGGTATGAACTTCGTATTTCCTTCCATTTCCATTTTTATTGGTGTGAAACATGTCACTCTTG TTATTTTTATTTGGTTATGCCCTCAAACAAAAACATTCCAGGAATCAGTTTCATCTAGTATAAG AGCATTCTTACATTTAATCACAGATATCATTTTGATTTTCCAAGATCAGATGTGTCAGTTGTTA TGATCATGTTATATGCTGTAAAAATAGTAAATACAAATTCTGTCCAGCACACATGTAAGAGGAT TAAGAGATATTAGCACTGGTCTTGAGTATGCTAATTGCACTTACACTTGAATACCTGTTGTTTC TTGCAAGATATAATTGTGCACATGTTCTGTGAAGGTTTACTTTTATTTTTTTTGTCTGGATTAG TCATCTTTTATTGTCATGTGTATACTCAGGTCGGCGATCAAGATGAAAAACTTGCTGAAGGAAT CAAACTTTATGCTATCCCGCTCACATCTACATCAAAGCGCACTGTTCTTAGTGATCTCATTACG GTATGTTATTGCAGTTCATGGATTTTTTAGCTGCCTTTTCCCCTCCTCTCTTTTCGGCTCAGCC TCCTGAGATTCAGAAACTAATAAGATCATGAAACCAGTTACAGTTTATACAGCTATGTTGGTGT ATCATCATGCCAGTAGATGCCCGATAAGTTTTTTTTTTTTTTTTACTTCAATCCAATTAAGATT TCAGAACATAATTCATTCATACATCTTCCATGTCTATCGAACTTTTTACTGACTTTATAACTAG TCTGTTTTGCTGAGCGTTGGCCACTCAATTATCTAAAAATATCTTGTTATCAGGTGTATGCAAA GGGTGGGAAAACCATTGTGTTCACCAAGACGAAAAGGGATGCAGACGAGGTATCATTAGCACTG ACAAACAGTATTGCTTCGGAGGCACTGCATGGTGATATTTCTCAGCATCAGCGTGAGAGGACAC TAAATGGTTTTCGTCAAGGGAAATTTACTGTTCTCGTAGCAACCGATGTTGCTGCCCGTGGTCT TGATATACCGAATGTTGATTTGGTGGGTTCACATATCCTCTTCACTTCATTTGATTCTAGATAT TGTAATTCTGTAAATCACCCTTCCTCACAGATCTTAACTCTTTCCTTTCCATAAAGCGATTATC AGTGAAGCTTCTGAGTTTTAAACTCCATTATTATTTACAGTGCTAAAATTAGATCATCAAACTG TCCATTTTCCCCCCTGAACTTAGGTTTTTGTATTGAAATATCATCTAGCTTTGATGTGTTTTAT AGCATCTCAATCTGATATCTTGGGTTAATCTTACGACTAGTTAACAAATTAACTGCATTCGAGC ATTATGCTATCTGGGATGAACTGTAGGTGTGTATGGATCAATTAACGAGAGGATTTCATTTTAA TGCAGATTATCCATTATGAATTGCCCAATGATCCAGAGACTTTTGTTCATCGTTCTGGACGCAC TGGCCGAGCTGGGAAAGCAGGAACTGCAATCTTGATGTTCACAAACAGCCAGAGAAGGACAGTT AGATCACTTGAGCGTGATGTTGGATGCAGATTTGACTTCATAAGTCCTCCAGCAATTGAGGATG TGCTGGAGTCCTCTGCTGAACATGTCATAGCTACTTTAAGAGGTGTGCACACGGAGTCGATTCA GTACTTCATTCCAGCAGCTGAAAGACTGCAAGAAGAATTAGGACCTAATGCTCTTGCTTCTGCA TTGGCACATCTGAGTGGATTTTCTCAGCCACCCTCTTCACGTTCTCTTATCAGTCATGAGCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS

Conservation Information
Conserved circRNAs	NA
PMCS

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							39181395-39183725(-)
39181393-39183729(+)
						
					

						Potential amino acid sequence
						
							MGMPKASVFPVPVFALAIRSRPSRAGINTALCS*(-)
MIKQLMEEDDGRSVRRGRIPRVLVLAPTRELAKQVEKEIKESAPKLSTVCVYGGVSYNVQQNAL
SRGVDVVVGTPGRIIDLINGGSLQLGEVKYLVLDEADQMLAVGFEEDVETILQQLPAERQSMLF
SATMPGWVKKLSRRYLNNPLTIDLVGDQDEKLAEGIKLYAIPLTSTSKRTVLSDLITVYAKGGK
TIVFTKTKRDADEVSLALTNSIASEALHGDISQHQRERTLNGFRQGKFTVLVATDVAARGLDIP
NVDLIIHYELPNDPETFVHRSGRTGRAGKAGTAILMFTNSQRRTVRSLERDVGCRFDFISPPAI
EDVLESSAEHVIATLRGVHTESIQYFIPAAERLQEELGPNALASALAHLSGFSQPPSSRSLISH
EQRAVLIPALDGRDLIARAKTGTGKTLAFGIPMIKQLMEEDDGRSVRRGRIPRVLVLAPTRELA
KQVEKEIKESAPKLSTVCVYGGVSYNVQQNALSRGVDVVVGTPGRIIDLINGGSLQLGEVKYLV
LDEADQMLAVGFEEDVETILQQLPAERQSMLFSATMPGWVKKLSRRYLNNPLTIDLVGDQDEKL
AEGIKLYAIPLTSTSKRTVLSDLITVYAKGGKTIVFTKTKRDADEVSLALTNSIASEALHGDIS
QHQRERTLNGFRQGKFTVLVATDVAARGLDIPNVDLIIHYELPNDPETFVHRSGRTGRAGKAGT
AILMFTNSQRRTVRSLERDVGCRFDFISPPAIEDVLESSAEHVIATLRGVHTESIQYFIPAAER
LQEELGPNALASALAHLSGFSQPPSSRSLISHEQRAVLIPALDGRDLIARAKTGTGKTLAFGIP
MIKQLMEEDDGRSVRRGRIPRVLVLAPTRELAKQVEKEIKESAPKLSTVCVYGGVSYNVQQNAL
SRGVDVVVGTPGRIIDLINGGSLQLGEVKYLVLDEADQMLAVGFEEDVETILQQLPAERQSMLF
SATMPGWVKKLSRRYLNNPLTIDLVGDQDEKLAEGIKLYAIPLTSTSKRTVLSDLITVYAKGGK
TIVFTKTKRDADEVSLALTNSIASEALHGDISQHQRERTLNGFRQGKFTVLVATDVAARGLDIP
NVDLIIHYELPNDPETFVHRSGRTGRAGKAGTAILMFTNSQRRTVRSLERDVGCRFDFISPPAI
EDVLESSAEHVIATLRGVHTESIQYFIPAAERLQEELGPNALASALAHLSGFSQPPSSRSLISH
EQRAVLIPALDGRDLIARAKTGTGKTLAFGIPMIKQLMEEDDGRSVRRGRIPRVLVLAPTRELA
KQVEKEIKESAPKLSTVCVYGGVSYNVQQNALSRGVDVVVGTPGRIIDLINGGSLQLGEVKYLV
LDEADQMLAVGFEEDVETILQQLPAERQSMLFSATMPGWVKKLSRRYLNNPLTIDLVGDQDEKL
AEGIKLYAIPLTSTSKRTVLSDLITVYAKGGKTIVFTKTKRDADEVSLALTNSIASEALHGDIS
QHQRERTLNGFRQGKFTVLVATDVAARGLDIPNVDLIIHYELPNDPETFVHRSGRTGRAGKAGT
AILMFTNSQRRTVRSLERDVGCRFDFISPPAIEDVLESSAEHVIATLRGVHTESIQYFIPAAER
LQEELGPNALASALAHLSGFSQPPSSRSLISHEQ(+)
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	39181395-39183725(-) 39181393-39183729(+)
Potential amino acid sequence	MGMPKASVFPVPVFALAIRSRPSRAGINTALCS*(-) MIKQLMEEDDGRSVRRGRIPRVLVLAPTRELAKQVEKEIKESAPKLSTVCVYGGVSYNVQQNAL SRGVDVVVGTPGRIIDLINGGSLQLGEVKYLVLDEADQMLAVGFEEDVETILQQLPAERQSMLF SATMPGWVKKLSRRYLNNPLTIDLVGDQDEKLAEGIKLYAIPLTSTSKRTVLSDLITVYAKGGK TIVFTKTKRDADEVSLALTNSIASEALHGDISQHQRERTLNGFRQGKFTVLVATDVAARGLDIP NVDLIIHYELPNDPETFVHRSGRTGRAGKAGTAILMFTNSQRRTVRSLERDVGCRFDFISPPAI EDVLESSAEHVIATLRGVHTESIQYFIPAAERLQEELGPNALASALAHLSGFSQPPSSRSLISH EQRAVLIPALDGRDLIARAKTGTGKTLAFGIPMIKQLMEEDDGRSVRRGRIPRVLVLAPTRELA KQVEKEIKESAPKLSTVCVYGGVSYNVQQNALSRGVDVVVGTPGRIIDLINGGSLQLGEVKYLV LDEADQMLAVGFEEDVETILQQLPAERQSMLFSATMPGWVKKLSRRYLNNPLTIDLVGDQDEKL AEGIKLYAIPLTSTSKRTVLSDLITVYAKGGKTIVFTKTKRDADEVSLALTNSIASEALHGDIS QHQRERTLNGFRQGKFTVLVATDVAARGLDIPNVDLIIHYELPNDPETFVHRSGRTGRAGKAGT AILMFTNSQRRTVRSLERDVGCRFDFISPPAIEDVLESSAEHVIATLRGVHTESIQYFIPAAER LQEELGPNALASALAHLSGFSQPPSSRSLISHEQRAVLIPALDGRDLIARAKTGTGKTLAFGIP MIKQLMEEDDGRSVRRGRIPRVLVLAPTRELAKQVEKEIKESAPKLSTVCVYGGVSYNVQQNAL SRGVDVVVGTPGRIIDLINGGSLQLGEVKYLVLDEADQMLAVGFEEDVETILQQLPAERQSMLF SATMPGWVKKLSRRYLNNPLTIDLVGDQDEKLAEGIKLYAIPLTSTSKRTVLSDLITVYAKGGK TIVFTKTKRDADEVSLALTNSIASEALHGDISQHQRERTLNGFRQGKFTVLVATDVAARGLDIP NVDLIIHYELPNDPETFVHRSGRTGRAGKAGTAILMFTNSQRRTVRSLERDVGCRFDFISPPAI EDVLESSAEHVIATLRGVHTESIQYFIPAAERLQEELGPNALASALAHLSGFSQPPSSRSLISH EQRAVLIPALDGRDLIARAKTGTGKTLAFGIPMIKQLMEEDDGRSVRRGRIPRVLVLAPTRELA KQVEKEIKESAPKLSTVCVYGGVSYNVQQNALSRGVDVVVGTPGRIIDLINGGSLQLGEVKYLV LDEADQMLAVGFEEDVETILQQLPAERQSMLFSATMPGWVKKLSRRYLNNPLTIDLVGDQDEKL AEGIKLYAIPLTSTSKRTVLSDLITVYAKGGKTIVFTKTKRDADEVSLALTNSIASEALHGDIS QHQRERTLNGFRQGKFTVLVATDVAARGLDIPNVDLIIHYELPNDPETFVHRSGRTGRAGKAGT AILMFTNSQRRTVRSLERDVGCRFDFISPPAIEDVLESSAEHVIATLRGVHTESIQYFIPAAER LQEELGPNALASALAHLSGFSQPPSSRSLISHEQ(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Huang et al., 2021

circRNA

Detail information of BGIOSGA013864_circ_g.3

Address

Any questions?

Supported by