Plant Circular RNA Database

Detail information of orai.013G107700_circ_g.3

			
						 General Information
					
						CircRNA Name
						orai.013G107700_circ_g.3
					
						ID in PlantcircBase
						gra_circ_001387
					
						Alias
						Chr13:23365573|23369246
					
						Organism
						
							Gossypium raimondii						
					
						Position
						
							chrChr13: 23365573-23369246  JBrowse»						
					
						Reference genome
						
							Graimondii_221						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							Gorai.013G107700						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						-
					
						Alternative splicing
						
							orai.013G107700_circ_g.1 orai.013G107700_circ_g.2 orai.013G107700_circ_g.4 orai.013G107700_circ_g.5 						
					
						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  
						
							CT-AC							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.013G107700.1:8
Gorai.013G107700.3:8
Gorai.013G107700.2:8

General Information
CircRNA Name	orai.013G107700_circ_g.3
ID in PlantcircBase	gra_circ_001387
Alias	Chr13:23365573\|23369246
Organism	Gossypium raimondii
Position	chrChr13: 23365573-23369246 JBrowse»
Reference genome	Graimondii_221
Type	e-circRNA
Identification method	CIRI
Parent gene	Gorai.013G107700
Parent gene annotation	NA
Parent gene strand	-
Alternative splicing	orai.013G107700_circ_g.1 orai.013G107700_circ_g.2 orai.013G107700_circ_g.4 orai.013G107700_circ_g.5
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	CT-AC 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.013G107700.1:8 Gorai.013G107700.3:8 Gorai.013G107700.2:8

			
						 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  
						
							GCATTACCTCTTCTGGCAATACATTGATCAAACCATTTCCGAACAATGATATGAACGTGACCCC
ATCTTCGGGCAACTTTATACTTGTCACCTTCAGGAAacttctgtcacacccattcctctctggt
gacttctgatcatgaatcttgaaaagaagcatagataattgagtcagccaaccagctatcttga
acaataaa

									
								

					

						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
						
							ACTTCTGTCACACCCATTCCTCTCTGGTGACTTCTGATCATGAATCTTGAAAAGAAGCATAGAT
AATTGAGTCAGCCAACCAGCTATCTTGAACAATAAAACAATTAGGTGATACAGTTAGAGGAACA
ACAATATTCACCTTACTAGTTTGCTCCAGTAAGTCTATAACAGTATCTACATCAGGCAAAACTT
GAGCAGCTTCACCTGCATTTTTTAATTTGTTGTTTCCAGTAGAATTTTCATTCAGAAAAGGCTC
GCATAAATGCACTCGAGAAACAAGCAGATCATTCTGGTCATCATCTTCTAAGTGCCTTGCCCTT
TTAAAATGATCATTTGATTGTTCGGCCTCATCTCTAGAGCCATCATTTCTATCACCAGTAATGC
TTCCCATTTTAACACCAAGATCTTGTGTTCTCAGACCCTGAGGTTGACTAGTAAACTGAGAGGG
AACATCTACAGCAATCATTTTAGCAGCTTGAGTTGGAAACTGGCTCACAGTGCATAATCCTGCT
TCTTGGTCTTGAGCAGTAACTTCTTTAGGGCAAAATGGATCCAGAGATACTACTTTATTCTACG
AGATTTAAATTGAACACATGAATTTTGTTGATCTTATCATTTCTAAGGAAAAACAACAAAAATT
CAGGGCAGACATGATTGGAAATGCATAACTGCGCAGATGAGCGCAGAGAGAGAGAGAGAGAGAA
AGAATCAGAACCTTACCTGCCTTACACATTCATAAATCCACTCTGATGTAACTGACTGTATTCC
CCATTTACAAGCAGCCTCATATTTCGGTCCACTAGTAAACTTGCACAACAAATGAGTCACCTTT
TTTGTAAGTTTTTCCACAAACTTAGCTCCAAGAATAAAACATAGATTTCTTAATAGCAATCTAT
CCTTCTCTTCATATTGTGAAACACAAAAGCGGAAGTTTTTGAACCCAGGAAATGGAATTTGACA
GGGAAGTGGCGAATAGAGAATATGTCTTCCAACATCCAGCAAGCATCCATCCTAGAATACCAGT
TCTCCATCAGCATTGACAAGATTATGAAAACACATATAATCCAACCAGATATTATTCAGACCCA
ATTACTACTTTCAGTTAAAAGAAATATCAATGCATGATGGTTTAGAGTAAAGAAGAAACCAAAG
GAAGCAGCAGTGGTAGCTGTAGCAACAGTATTAGACAAGTACACATATTGTACTATGCACTATA
TGTAACCAGAAAAAGGCATATCATGACCAAAGAGGAAGTTTTAAGCATACCTCTAAACAAGACC
TGACCCAGTGAGTAGAAACATAAGTAATCTGGGAATCAGTAATACAACTGGGTATCACACCATG
ACACTCAATAATAAAATTCACATTCTTTTTCACTTGATCCTCAACAACCTGTCCACCGCCTTGA
TCCACCCATTCAACAATTTCAGCTCTCTGGCAGAAGAAATTGAAAGAATATTAAGGAGGAAATA
GCACTAGAAAAAGTAACCATCAGAACTAAGATAGATAGCAATACATAGAGCCAACGTAAGAAAT
ATATCAGATACAAATAAATACGACATGCTAAAACAGTTCAAAAGCAGTTAAATATCTGAGATGT
TAGACAGCAACAACATGGGGATTTTAAATGGTTATCAAATCTTTGTTATGGGCAGGTGCCTCTT
ACTTTGAGGCAGGGGCTTTAGTTACAAGATTAGGGCATCCCAAATTGACCAATGGAAAATAAAT
TGCCCTTTGTTCCTCCAGAGCCCTTCTCCAGTCTAAAATTTTAGTTACAGGGAAAACAAGGCAA
TTCCCTTCTTCAGTTGGGTGAGTCAGTTGCTAGGCCAAAAAAAATCTCAACAAGGAGGATGGAT
TCAGGTGGTTATTTTAGCAAGCATAAAGTCTTTTGGCAACTTTCAAGCATACTGTTGCATACTT
ATGGTGAGTGTAGTACTAGTAAGATTTTTGCCAAGTTTACTTGAGTATATTTCTTCTTGAAAGT
CATATGTCCATATCAACGTTTTCAAGTTGAACCATCTCAAAAATTCACAACCAAATACTCATGC
AGGGTCAAAATATTCATAGCGCAAGATTCTTACCCTATCTTCAGGAAAGGAAACTGAAAAACAA
AATGTTTTCCCCTTAAATACAGCTGATGAAATCCCATTCTTAGGATTTTGGACTACAGAGTCAT
ATTGCTGCTTCTGCCAAAAATTACTTGTACTATTTATTGTAGGAAGTAGACCTTGCTTGGATGA
TCCTACAGTAGCTTTCAAACAGCTTCCCCCATTCATGTTGATTTTAGGTTTATCATCTAGACTT
TTCCCAAATGATGAAGGCATTCCAGTTCCAGAGTTTGTAGGAACTGAGGATTTACTTTGATTTG
AATTGATAATTCCCGTCACTGCTCCTCTGACAGAGTGCGCAGAATCTGTCCAAGCATGATGATC
AGTTAAACGCATGAAAAATAATTCATACCAGAAGCTATAAAGAACTTACTGACATATCTGTTAA
TTCCAGAACAAGATCTCTATCTTTTTATTGTAAGAGAATGTCAAAAACAAAATACATCCAGCAT
GAACATGAATTCAAGATGAAGACTGATTTCAGAGAATAATTGGCAACCTTTAGGAAGAAGTAAG
CCGTATGCAACATGCCTCTGATGAACGGGGATTTCTTTCTTTTGACGATCACAGTCCTCAAGCC
AGCTGGTCTTTACCACATGGATAACACCTGAAGCAGCAATGCTTCGTACCTCTTTCTTTTCCCT
AGACAAAAGGACAAACATACGAAAGAGAAAGCTTTATGAAAACAGGGGGAAACAGTCAATGTAA
CAAATGTATCAGTACATTGAGGCCAGAAGATGAAAACCCATAGCTTGCAAAGCACAATTTGGAA
AGAACTCAAAGGAAGAAACTCATGGGAGAAAAAAAAAACTCACAACATTGTTTGCACAAAAAGA
AGAAATACTTACAATTCAGATGGTGCCCCAACAACTATGTGCGTCAATTTTTCATTACATGACA
TATACCGGGATGCACCACCTCTACGCACCATGGTAACCAGCTTACGCATTTCAGAAGCTTCAAA
GCCTACAAGTGAAATTTTACAATCTGACAAGTATAGATCATTATCTTCAGATTGAGAATCATTG
GCAACACAACCATCAAGCTTTGTTTCAGTAGAGGGCTGCAAATTTGGTGCTTCACCACCATCCT
CTTCAAAAATGGCCTGAGCATCTGATAACACAGAAGGTGTATTCTGAGAATGAGCAGCTTCAAG
ATCTGGATCTCCCAATCCGGTAGAAGGCACTGTGGACATATTAAATTCAGGAACCACCAAGGAG
GTTGCAGACACTGAACTTGCCCTAAACTTGTCTTGACTATGCTGTGCTGACAAGGAACCACTCA
CACTTTTCTTTGAAGATGCACTGCCACCTTGGACAGGATAGGACTCCTCATTAAGGCATGCTAT
CCACCAGGGACAAAGGATTATTCATGGTCAGATACAATTTGAAGTCATTGATAATACATGGTAG
TACAAATACTCCAGATATCATAACTCAGGAATACTAGACATTACTAACAACAAAGCATTACCTC
TTCTGGCAATACATTGATCAAACCATTTCCGAACAATGATATGAACGTGACCCCATCTTCGGGC
AACTTTATACTTGTCACCTTCAGGAA
						
					

			
		

Sequences
Splice junction sequence	GCATTACCTCTTCTGGCAATACATTGATCAAACCATTTCCGAACAATGATATGAACGTGACCCC ATCTTCGGGCAACTTTATACTTGTCACCTTCAGGAAacttctgtcacacccattcctctctggt gacttctgatcatgaatcttgaaaagaagcatagataattgagtcagccaaccagctatcttga acaataaa
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	ACTTCTGTCACACCCATTCCTCTCTGGTGACTTCTGATCATGAATCTTGAAAAGAAGCATAGAT AATTGAGTCAGCCAACCAGCTATCTTGAACAATAAAACAATTAGGTGATACAGTTAGAGGAACA ACAATATTCACCTTACTAGTTTGCTCCAGTAAGTCTATAACAGTATCTACATCAGGCAAAACTT GAGCAGCTTCACCTGCATTTTTTAATTTGTTGTTTCCAGTAGAATTTTCATTCAGAAAAGGCTC GCATAAATGCACTCGAGAAACAAGCAGATCATTCTGGTCATCATCTTCTAAGTGCCTTGCCCTT TTAAAATGATCATTTGATTGTTCGGCCTCATCTCTAGAGCCATCATTTCTATCACCAGTAATGC TTCCCATTTTAACACCAAGATCTTGTGTTCTCAGACCCTGAGGTTGACTAGTAAACTGAGAGGG AACATCTACAGCAATCATTTTAGCAGCTTGAGTTGGAAACTGGCTCACAGTGCATAATCCTGCT TCTTGGTCTTGAGCAGTAACTTCTTTAGGGCAAAATGGATCCAGAGATACTACTTTATTCTACG AGATTTAAATTGAACACATGAATTTTGTTGATCTTATCATTTCTAAGGAAAAACAACAAAAATT CAGGGCAGACATGATTGGAAATGCATAACTGCGCAGATGAGCGCAGAGAGAGAGAGAGAGAGAA AGAATCAGAACCTTACCTGCCTTACACATTCATAAATCCACTCTGATGTAACTGACTGTATTCC CCATTTACAAGCAGCCTCATATTTCGGTCCACTAGTAAACTTGCACAACAAATGAGTCACCTTT TTTGTAAGTTTTTCCACAAACTTAGCTCCAAGAATAAAACATAGATTTCTTAATAGCAATCTAT CCTTCTCTTCATATTGTGAAACACAAAAGCGGAAGTTTTTGAACCCAGGAAATGGAATTTGACA GGGAAGTGGCGAATAGAGAATATGTCTTCCAACATCCAGCAAGCATCCATCCTAGAATACCAGT TCTCCATCAGCATTGACAAGATTATGAAAACACATATAATCCAACCAGATATTATTCAGACCCA ATTACTACTTTCAGTTAAAAGAAATATCAATGCATGATGGTTTAGAGTAAAGAAGAAACCAAAG GAAGCAGCAGTGGTAGCTGTAGCAACAGTATTAGACAAGTACACATATTGTACTATGCACTATA TGTAACCAGAAAAAGGCATATCATGACCAAAGAGGAAGTTTTAAGCATACCTCTAAACAAGACC TGACCCAGTGAGTAGAAACATAAGTAATCTGGGAATCAGTAATACAACTGGGTATCACACCATG ACACTCAATAATAAAATTCACATTCTTTTTCACTTGATCCTCAACAACCTGTCCACCGCCTTGA TCCACCCATTCAACAATTTCAGCTCTCTGGCAGAAGAAATTGAAAGAATATTAAGGAGGAAATA GCACTAGAAAAAGTAACCATCAGAACTAAGATAGATAGCAATACATAGAGCCAACGTAAGAAAT ATATCAGATACAAATAAATACGACATGCTAAAACAGTTCAAAAGCAGTTAAATATCTGAGATGT TAGACAGCAACAACATGGGGATTTTAAATGGTTATCAAATCTTTGTTATGGGCAGGTGCCTCTT ACTTTGAGGCAGGGGCTTTAGTTACAAGATTAGGGCATCCCAAATTGACCAATGGAAAATAAAT TGCCCTTTGTTCCTCCAGAGCCCTTCTCCAGTCTAAAATTTTAGTTACAGGGAAAACAAGGCAA TTCCCTTCTTCAGTTGGGTGAGTCAGTTGCTAGGCCAAAAAAAATCTCAACAAGGAGGATGGAT TCAGGTGGTTATTTTAGCAAGCATAAAGTCTTTTGGCAACTTTCAAGCATACTGTTGCATACTT ATGGTGAGTGTAGTACTAGTAAGATTTTTGCCAAGTTTACTTGAGTATATTTCTTCTTGAAAGT CATATGTCCATATCAACGTTTTCAAGTTGAACCATCTCAAAAATTCACAACCAAATACTCATGC AGGGTCAAAATATTCATAGCGCAAGATTCTTACCCTATCTTCAGGAAAGGAAACTGAAAAACAA AATGTTTTCCCCTTAAATACAGCTGATGAAATCCCATTCTTAGGATTTTGGACTACAGAGTCAT ATTGCTGCTTCTGCCAAAAATTACTTGTACTATTTATTGTAGGAAGTAGACCTTGCTTGGATGA TCCTACAGTAGCTTTCAAACAGCTTCCCCCATTCATGTTGATTTTAGGTTTATCATCTAGACTT TTCCCAAATGATGAAGGCATTCCAGTTCCAGAGTTTGTAGGAACTGAGGATTTACTTTGATTTG AATTGATAATTCCCGTCACTGCTCCTCTGACAGAGTGCGCAGAATCTGTCCAAGCATGATGATC AGTTAAACGCATGAAAAATAATTCATACCAGAAGCTATAAAGAACTTACTGACATATCTGTTAA TTCCAGAACAAGATCTCTATCTTTTTATTGTAAGAGAATGTCAAAAACAAAATACATCCAGCAT GAACATGAATTCAAGATGAAGACTGATTTCAGAGAATAATTGGCAACCTTTAGGAAGAAGTAAG CCGTATGCAACATGCCTCTGATGAACGGGGATTTCTTTCTTTTGACGATCACAGTCCTCAAGCC AGCTGGTCTTTACCACATGGATAACACCTGAAGCAGCAATGCTTCGTACCTCTTTCTTTTCCCT AGACAAAAGGACAAACATACGAAAGAGAAAGCTTTATGAAAACAGGGGGAAACAGTCAATGTAA CAAATGTATCAGTACATTGAGGCCAGAAGATGAAAACCCATAGCTTGCAAAGCACAATTTGGAA AGAACTCAAAGGAAGAAACTCATGGGAGAAAAAAAAAACTCACAACATTGTTTGCACAAAAAGA AGAAATACTTACAATTCAGATGGTGCCCCAACAACTATGTGCGTCAATTTTTCATTACATGACA TATACCGGGATGCACCACCTCTACGCACCATGGTAACCAGCTTACGCATTTCAGAAGCTTCAAA GCCTACAAGTGAAATTTTACAATCTGACAAGTATAGATCATTATCTTCAGATTGAGAATCATTG GCAACACAACCATCAAGCTTTGTTTCAGTAGAGGGCTGCAAATTTGGTGCTTCACCACCATCCT CTTCAAAAATGGCCTGAGCATCTGATAACACAGAAGGTGTATTCTGAGAATGAGCAGCTTCAAG ATCTGGATCTCCCAATCCGGTAGAAGGCACTGTGGACATATTAAATTCAGGAACCACCAAGGAG GTTGCAGACACTGAACTTGCCCTAAACTTGTCTTGACTATGCTGTGCTGACAAGGAACCACTCA CACTTTTCTTTGAAGATGCACTGCCACCTTGGACAGGATAGGACTCCTCATTAAGGCATGCTAT CCACCAGGGACAAAGGATTATTCATGGTCAGATACAATTTGAAGTCATTGATAATACATGGTAG TACAAATACTCCAGATATCATAACTCAGGAATACTAGACATTACTAACAACAAAGCATTACCTC TTCTGGCAATACATTGATCAAACCATTTCCGAACAATGATATGAACGTGACCCCATCTTCGGGC AACTTTATACTTGTCACCTTCAGGAA

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.118364995

Conservation Information
Conserved circRNAs	NA
PMCS	0.118364995

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							23368876-23368964(-)
23369197-23365606(+)
						
						Potential amino acid sequence
						
							MSTVPSTGLGDPDLEAAHSQNTPSVLSDAQAIFEEDGGEAPNLQPSTETKLDGCVANDSQSEDN
DLYLSDCKISLVGFEASEMRKLVTMVRRGGASRYMSCNEKLTHIVVGAPSELEKKEVRSIAASG
VIHVVKTSWLEDCDRQKKEIPVHQRHVAYGLLLPKDSAHSVRGAVTGIINSNQSKSSVPTNSGT
GMPSSFGKSLDDKPKINMNGGSCLKATVGSSKQGLLPTINSTSNFWQKQQYDSVVQNPKNGISS
AVFKGKTFCFSVSFPEDRRAEIVEWVDQGGGQVVEDQVKKNVNFIIECHGVIPSCITDSQITYV
STHWVRSCLEDGCLLDVGRHILYSPLPCQIPFPGFKNFRFCVSQYEEKDRLLLRNLCFILGAKF
VEKLTKKVTHLLCKFTSGPKYEAACKWGIQSVTSEWIYECVRQNKVVSLDPFCPKEVTAQDQEA
GLCTVSQFPTQAAKMIAVDVPSQFTSQPQGLRTQDLGVKMGSITGDRNDGSRDEAEQSNDHFKR
ARHLEDDDQNDLLVSRVHLCEPFLNENSTGNNKLKNAGEAAQVLPDVDTVIDLLEQTSKIHDQK
SPERNGCDRSFLKVTSIKLPEDGVTFISLFGNGLINVLPEEHALMRSPILSKVAVHLQRKV*(-
)
MNVTPSSGNFILVTFRKLLSHPFLSGDF*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	23368876-23368964(-) 23369197-23365606(+)
Potential amino acid sequence	MSTVPSTGLGDPDLEAAHSQNTPSVLSDAQAIFEEDGGEAPNLQPSTETKLDGCVANDSQSEDN DLYLSDCKISLVGFEASEMRKLVTMVRRGGASRYMSCNEKLTHIVVGAPSELEKKEVRSIAASG VIHVVKTSWLEDCDRQKKEIPVHQRHVAYGLLLPKDSAHSVRGAVTGIINSNQSKSSVPTNSGT GMPSSFGKSLDDKPKINMNGGSCLKATVGSSKQGLLPTINSTSNFWQKQQYDSVVQNPKNGISS AVFKGKTFCFSVSFPEDRRAEIVEWVDQGGGQVVEDQVKKNVNFIIECHGVIPSCITDSQITYV STHWVRSCLEDGCLLDVGRHILYSPLPCQIPFPGFKNFRFCVSQYEEKDRLLLRNLCFILGAKF VEKLTKKVTHLLCKFTSGPKYEAACKWGIQSVTSEWIYECVRQNKVVSLDPFCPKEVTAQDQEA GLCTVSQFPTQAAKMIAVDVPSQFTSQPQGLRTQDLGVKMGSITGDRNDGSRDEAEQSNDHFKR ARHLEDDDQNDLLVSRVHLCEPFLNENSTGNNKLKNAGEAAQVLPDVDTVIDLLEQTSKIHDQK SPERNGCDRSFLKVTSIKLPEDGVTFISLFGNGLINVLPEEHALMRSPILSKVAVHLQRKV(- ) MNVTPSSGNFILVTFRKLLSHPFLSGDF(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Zhao et al., 2017b

circRNA

Detail information of orai.013G107700_circ_g.3

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