Plant Circular RNA Database

Detail information of orai.009G140800_circ_g.1

			
						 General Information
					
						CircRNA Name
						orai.009G140800_circ_g.1
					
						ID in PlantcircBase
						gra_circ_000944
					
						Alias
						Chr09:10656691|10658528
					
						Organism
						
							Gossypium raimondii						
					
						Position
						
							chrChr09: 10656691-10658528  JBrowse»						
					
						Reference genome
						
							Graimondii_221						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							Gorai.009G140800						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						2
					
						Tissues
						ovule
					
						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
						Gorai.009G140800.2:7
Gorai.009G140800.1:7

General Information
CircRNA Name	orai.009G140800_circ_g.1
ID in PlantcircBase	gra_circ_000944
Alias	Chr09:10656691\|10658528
Organism	Gossypium raimondii
Position	chrChr09: 10656691-10658528 JBrowse»
Reference genome	Graimondii_221
Type	e-circRNA
Identification method	CIRI
Parent gene	Gorai.009G140800
Parent gene annotation	NA
Parent gene strand	+
Alternative splicing	NA
Support reads	2
Tissues	ovule
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	Gorai.009G140800.2:7 Gorai.009G140800.1:7

			
						 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  
						
							ACATTTTGAGACATGGAATGCTGGTATTCTTGGCCCTGTTACATTGAATGGTCTGAATGAGGGA
AGGAGAGATCTCTCATGGCAGAAATGGTCTTACAAGtatcaaggaggaacaaattttggccgaa
ctgctgggggtccattcattgctactagctatgattatgatgctcctcttgatgaatatggtac
gtacagag

									
								

					

						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
						
							TATCAAGGAGGAACAAATTTTGGCCGAACTGCTGGGGGTCCATTCATTGCTACTAGCTATGATT
ATGATGCTCCTCTTGATGAATATGGTACGTACAGAGTATCAATGGTGCACTTTTGTAGTTGACC
CTGCATCATCTAGTTTCTATTATTTTCTTAGTTTAAAACCATGCAGTCTATGTTTTCAGCCTTC
ATTGTGAGCGGAAATATATTTTAAGAATTAGTTCCTCGATATTGATTTGAAGAAGAACCGTTTT
GTTGTCATGCAGGACTAAAGAGGCAACCAAAGTGGGGCCATTTGAAGGATTTGCATAGGGCTAT
AAAGCTCTGTGAACCAGCTTTAGTAAATGGAGATCCCACTGTGATTCAACTTGGAAACTATGAG
GAGGTTAATACGACTTATATTTCTAAGAACCTTAGTCATAATACTGTAAATTGTTTGTATGGGA
AACTTATGTATAATTCCATTTGAACCATTCAGGCTCATGTATTTAATTACAAGACCGGAGGTTG
TGCGGCCTTCCTTGCGAATTACAACCCAAATTCTTACGCAAAAGTTGCCTTTAGGAACATGCAC
TACAACCTACCTCCTTGGTCCATCAGCATTCTTCCTGACTGCAAGAATACTGTGTATAACACTG
CAAGGGTGAGAAACATCTAATAAACTTCATAATGATTTTATTCTATTTTTAGCAATATTTTATC
AAGATGATTTCTGGCCAAGCATCTTGCAAAGAAAGCTTATCCAAATTAATATCACACATTCTAT
TTTTTGTGGTGTGTCCTATTGCTTATTTTGAGATGGCTTCCACATTGAAGTTCTTTTTGTGGAA
TTAATACAAGAGGAATCAGCCAATGTTTTCTCTTTTCCCTCTGTTGACAATATGAAAGAAACAT
GATATTGATAGGTTGGTGCCCAAATTTCACGGAAGAAGATGGTTCCTGTTCCCATGCATGGAGG
ATTCTCTTGGCAGGCATGCAATGACGAGACAGCTTCAGATGTTGACAGTACATTCACGATGGTT
GGGTTGTTGGAGCAGATAAATACAACTAGAGATGCGACTGACTATTTGTGGTACACAACAAAGT
AAGTAGTGAATAGCAATACCTCATTTCAATTTGCATCATCTGTCTTTATTCAACTTAGTTATCT
CAAAGCATTCTTTTCATTCCTTGATAAATAAAAGCAAGATTCCATTAAAATCTTGTTTAATTTC
CATTATTTGACTTAGTAATATTTTGTATATTCTGTTTCCATTCGCAGTGTTAAGATTGACCCCA
GGGAAGGATTCTTGAAGAATGGAAAATCTCCTGTTCTCACTATCTTTTCAGCTGGCCATGCTTT
GCATGTTTTTGTCAATGGTCAACTATCAGGTCAGATTGTTGTTGGATTTATACATGTGTGTGTA
TTTGTTTATCTAGTAGACCACCTTATGTAGGTCGATTCTACTGTGTTGGCTTGTGGTGCCTGCT
TTAAGGACAATTAGCATTTATGTCTAACATTTTTTCTTTGCCCCTAATTGGTTTTATCAGGAAG
TTCCTATGGAAGTCTAGAATTCCCCAAACTAACATTCAACCAAGGTGTTAATCTGAGAGCTGGT
GTCAATACAATTTCACTTCTAAGCATTGCTGTTGGTCTCCCCGTATGCTCTCTCTCTCTCTCTC
TGCTGAAAGCTTCATACCTATGGAATTTGTCTACAGATTATTGAATTTGTTGTTTGAATGCAGA
ATGTCGGTCCACATTTTGAGACATGGAATGCTGGTATTCTTGGCCCTGTTACATTGAATGGTCT
GAATGAGGGAAGGAGAGATCTCTCATGGCAGAAATGGTCTTACAAG
						
					

			
		

Sequences
Splice junction sequence	ACATTTTGAGACATGGAATGCTGGTATTCTTGGCCCTGTTACATTGAATGGTCTGAATGAGGGA AGGAGAGATCTCTCATGGCAGAAATGGTCTTACAAGtatcaaggaggaacaaattttggccgaa ctgctgggggtccattcattgctactagctatgattatgatgctcctcttgatgaatatggtac gtacagag
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	TATCAAGGAGGAACAAATTTTGGCCGAACTGCTGGGGGTCCATTCATTGCTACTAGCTATGATT ATGATGCTCCTCTTGATGAATATGGTACGTACAGAGTATCAATGGTGCACTTTTGTAGTTGACC CTGCATCATCTAGTTTCTATTATTTTCTTAGTTTAAAACCATGCAGTCTATGTTTTCAGCCTTC ATTGTGAGCGGAAATATATTTTAAGAATTAGTTCCTCGATATTGATTTGAAGAAGAACCGTTTT GTTGTCATGCAGGACTAAAGAGGCAACCAAAGTGGGGCCATTTGAAGGATTTGCATAGGGCTAT AAAGCTCTGTGAACCAGCTTTAGTAAATGGAGATCCCACTGTGATTCAACTTGGAAACTATGAG GAGGTTAATACGACTTATATTTCTAAGAACCTTAGTCATAATACTGTAAATTGTTTGTATGGGA AACTTATGTATAATTCCATTTGAACCATTCAGGCTCATGTATTTAATTACAAGACCGGAGGTTG TGCGGCCTTCCTTGCGAATTACAACCCAAATTCTTACGCAAAAGTTGCCTTTAGGAACATGCAC TACAACCTACCTCCTTGGTCCATCAGCATTCTTCCTGACTGCAAGAATACTGTGTATAACACTG CAAGGGTGAGAAACATCTAATAAACTTCATAATGATTTTATTCTATTTTTAGCAATATTTTATC AAGATGATTTCTGGCCAAGCATCTTGCAAAGAAAGCTTATCCAAATTAATATCACACATTCTAT TTTTTGTGGTGTGTCCTATTGCTTATTTTGAGATGGCTTCCACATTGAAGTTCTTTTTGTGGAA TTAATACAAGAGGAATCAGCCAATGTTTTCTCTTTTCCCTCTGTTGACAATATGAAAGAAACAT GATATTGATAGGTTGGTGCCCAAATTTCACGGAAGAAGATGGTTCCTGTTCCCATGCATGGAGG ATTCTCTTGGCAGGCATGCAATGACGAGACAGCTTCAGATGTTGACAGTACATTCACGATGGTT GGGTTGTTGGAGCAGATAAATACAACTAGAGATGCGACTGACTATTTGTGGTACACAACAAAGT AAGTAGTGAATAGCAATACCTCATTTCAATTTGCATCATCTGTCTTTATTCAACTTAGTTATCT CAAAGCATTCTTTTCATTCCTTGATAAATAAAAGCAAGATTCCATTAAAATCTTGTTTAATTTC CATTATTTGACTTAGTAATATTTTGTATATTCTGTTTCCATTCGCAGTGTTAAGATTGACCCCA GGGAAGGATTCTTGAAGAATGGAAAATCTCCTGTTCTCACTATCTTTTCAGCTGGCCATGCTTT GCATGTTTTTGTCAATGGTCAACTATCAGGTCAGATTGTTGTTGGATTTATACATGTGTGTGTA TTTGTTTATCTAGTAGACCACCTTATGTAGGTCGATTCTACTGTGTTGGCTTGTGGTGCCTGCT TTAAGGACAATTAGCATTTATGTCTAACATTTTTTCTTTGCCCCTAATTGGTTTTATCAGGAAG TTCCTATGGAAGTCTAGAATTCCCCAAACTAACATTCAACCAAGGTGTTAATCTGAGAGCTGGT GTCAATACAATTTCACTTCTAAGCATTGCTGTTGGTCTCCCCGTATGCTCTCTCTCTCTCTCTC TGCTGAAAGCTTCATACCTATGGAATTTGTCTACAGATTATTGAATTTGTTGTTTGAATGCAGA ATGTCGGTCCACATTTTGAGACATGGAATGCTGGTATTCTTGGCCCTGTTACATTGAATGGTCT GAATGAGGGAAGGAGAGATCTCTCATGGCAGAAATGGTCTTACAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.145354339

Conservation Information
Conserved circRNAs	NA
PMCS	0.145354339

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							10657261-10658525(+)
10658485-10656961(+)
10658507-10656743(+)
10656734-10658469(-)
						
					

						Potential amino acid sequence
						
							MHYNLPPWSISILPDCKNTVYNTARVGAQISRKKMVPVPMHGGFSWQACNDETASDVDSTFTMV
GLLEQINTTRDATDYLWYTTNVKIDPREGFLKNGKSPVLTIFSAGHALHVFVNGQLSGSSYGSL
EFPKLTFNQGVNLRAGVNTISLLSIAVGLPNVGPHFETWNAGILGPVTLNGLNEGRRDLSWQKW
SYKYQGGTNFGRTAGGPFIATSYDYDAPLDEYGLKRQPKWGHLKDLHRAIKLCEPALVNGDPTV
IQLGNYEEAHVFNYKTGGCAAFLANYNPNSYAKVAFRNMHYNLPPWSISILPDCKNTVYNTARV
GAQISRKKMVPVPMHGGFSWQACNDETASDVDSTFTMVGLLEQINTTRDATDYLWYTTNVKIDP
REGFLKNGKSPVLTIFSAGHALHVFVNGQLSGSSYGSLEFPKLTFNQGVNLRAGVNTISLLSIA
VGLPNVGPHFETWNAGILGPVTLNGLNEGRRDLSWQKWSYKYQGGTNFGRTAGGPFIATSYDYD
APLDEYGLKRQPKWGHLKDLHRAIKLCEPALVNGDPTVIQLGNYEEAHVFNYKTGGCAAFLANY
NPNSYAKVAFRNMHYNLPPWSISILPDCKNTVYNTARVGAQISRKKMVPVPMHGGFSWQACNDE
TASDVDSTFTMVGLLEQINTTRDATDYLWYTTNVKIDPREGFLKNGKSPVLTIFSAGHALHVFV
NGQLSGSSYGSLEFPKLTFNQGVNLRAGVNTISLLSIAVGLPNVGPHFETWNAGILGPVTLNGL
NEGRRDLSWQKWSYKYQGGTNFGRTAGGPFIATSYDYDAPLDEYGLKRQPKWGHLKDLHRAIKL
CEPALVNGDPTVIQLGNYEEAHVFNYKTGGCAAFLANYNPNSYAKVAFRNMHYNLPPWSISILP
DCKNTVYNTARVGAQISRKKMVPVPMHGGFSWQACNDETASDVDSTFTMVGLLEQINTTRDATD
YLWYTTNVKIDPREGFLKNGKSPVLTIFSAGHALHVFVNGQLSGSSYGSLEFPKLTFNQGVNLR
AGVNTISLLSIAVGLPNVGPHFETWNAGILGPVTLNGLNEGRRDLSWQKWSYK(+)
MREGEISHGRNGLTSIKEEQILAELLGVHSLLLAMIMMLLLMNMD*(+)
MAEMVLQVSRRNKFWPNCWGSIHCY*(+)
MDPQQFGQNLFLLDTCKTISAMRDLSFPHSDHSM*(-)
						
					

						Sponge-miRNAs
						
							gra-miR8710b 						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	10657261-10658525(+) 10658485-10656961(+) 10658507-10656743(+) 10656734-10658469(-)
Potential amino acid sequence	MHYNLPPWSISILPDCKNTVYNTARVGAQISRKKMVPVPMHGGFSWQACNDETASDVDSTFTMV GLLEQINTTRDATDYLWYTTNVKIDPREGFLKNGKSPVLTIFSAGHALHVFVNGQLSGSSYGSL EFPKLTFNQGVNLRAGVNTISLLSIAVGLPNVGPHFETWNAGILGPVTLNGLNEGRRDLSWQKW SYKYQGGTNFGRTAGGPFIATSYDYDAPLDEYGLKRQPKWGHLKDLHRAIKLCEPALVNGDPTV IQLGNYEEAHVFNYKTGGCAAFLANYNPNSYAKVAFRNMHYNLPPWSISILPDCKNTVYNTARV GAQISRKKMVPVPMHGGFSWQACNDETASDVDSTFTMVGLLEQINTTRDATDYLWYTTNVKIDP REGFLKNGKSPVLTIFSAGHALHVFVNGQLSGSSYGSLEFPKLTFNQGVNLRAGVNTISLLSIA VGLPNVGPHFETWNAGILGPVTLNGLNEGRRDLSWQKWSYKYQGGTNFGRTAGGPFIATSYDYD APLDEYGLKRQPKWGHLKDLHRAIKLCEPALVNGDPTVIQLGNYEEAHVFNYKTGGCAAFLANY NPNSYAKVAFRNMHYNLPPWSISILPDCKNTVYNTARVGAQISRKKMVPVPMHGGFSWQACNDE TASDVDSTFTMVGLLEQINTTRDATDYLWYTTNVKIDPREGFLKNGKSPVLTIFSAGHALHVFV NGQLSGSSYGSLEFPKLTFNQGVNLRAGVNTISLLSIAVGLPNVGPHFETWNAGILGPVTLNGL NEGRRDLSWQKWSYKYQGGTNFGRTAGGPFIATSYDYDAPLDEYGLKRQPKWGHLKDLHRAIKL CEPALVNGDPTVIQLGNYEEAHVFNYKTGGCAAFLANYNPNSYAKVAFRNMHYNLPPWSISILP DCKNTVYNTARVGAQISRKKMVPVPMHGGFSWQACNDETASDVDSTFTMVGLLEQINTTRDATD YLWYTTNVKIDPREGFLKNGKSPVLTIFSAGHALHVFVNGQLSGSSYGSLEFPKLTFNQGVNLR AGVNTISLLSIAVGLPNVGPHFETWNAGILGPVTLNGLNEGRRDLSWQKWSYK(+) MREGEISHGRNGLTSIKEEQILAELLGVHSLLLAMIMMLLLMNMD(+) MAEMVLQVSRRNKFWPNCWGSIHCY(+) MDPQQFGQNLFLLDTCKTISAMRDLSFPHSDHSM*(-)
Sponge-miRNAs	gra-miR8710b
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Zhao et al., 2017b

circRNA

Detail information of orai.009G140800_circ_g.1

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