Plant Circular RNA Database

Detail information of AT2G29650_circ_g.5

			
						 General Information
					
						CircRNA Name
						AT2G29650_circ_g.5
					
						ID in PlantcircBase
						ath_circ_015577
					
						Alias
						NA
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr2: 12674346-12675568  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							AT2G29650						
					
						Parent gene annotation
						
							Sodium-dependent phosphate transport protein 1, chloroplastic
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT2G29650_circ_g.3 AT2G29650_circ_g.4 AT2G29650_circ_g.6 AT2G29650_circ_g.7 AT2G29650_circ_g.8 						
					
						Support reads
						2
					
						Tissues
						seedlings
					
						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
						AT2G29650.3:5
AT2G29650.2:5
AT2G29650.1:5
AT2G29650.4:5

General Information
CircRNA Name	AT2G29650_circ_g.5
ID in PlantcircBase	ath_circ_015577
Alias	NA
Organism	Arabidpsis thaliana
Position	chr2: 12674346-12675568 JBrowse»
Reference genome	TAIR10.38
Type	ue-circRNA
Identification method	CIRCexplorer
Parent gene	AT2G29650
Parent gene annotation	Sodium-dependent phosphate transport protein 1, chloroplastic
Parent gene strand	-
Alternative splicing	AT2G29650_circ_g.3 AT2G29650_circ_g.4 AT2G29650_circ_g.6 AT2G29650_circ_g.7 AT2G29650_circ_g.8
Support reads	2
Tissues	seedlings
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	AT2G29650.3:5 AT2G29650.2:5 AT2G29650.1:5 AT2G29650.4:5

			
						 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  
						
							GAAGGTAACCCCAGAAGAAAGAAGACTGAATCAGACCAACTGTTGCTGGATTCCAACCATACTC
AGCTGACATCGGAAGTATAGCTATACTCATATTCACcttgcggacattcgtgacagagaaacct
cggctgacaagtgtatcggcaatccatccaccggcatttgcagatattgccattgtcatccatg
gaaataca

									
								

					

						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: 828
Transcript exons: 12674346-12674483,12674570-12674779,12674868-12675083,12
675173-12675328,12675461-12675568
CTTGCGGACATTCGTGACAGAGAAACCTCGGCTGACAAGTGTATCGGCAATCCATCCACCGGCA
TTTGCAGATATTGCCATTGTCATCCATGGAAATACAGAGAGAAGTCCTGACTCCATAAGGTTGA
ACTTCAGCACTTGATGGTAATAAGTTGGCATCCATGTTAAGAGAATGAATGTTCCCCAGTTGTG
ACAAAAGTGGCAACTGATGAGAGCCCAAACCGGTGGTTTCGACAATATCAGCCTCCACGGGATC
GACTTCACTGGCTCTTTGCTAGCACAGTTGTCTGCAATTAGCTTTCTTTCTTCAGGGAGCAATG
TTGGATCTTCTAATGGTGAACTCTCTGCCTTAGTTAGCCACAGAGTCAACCATACAGTTCCAAG
AGACCCGAAAGAATAAAACACAGAAGGCCATCCAAATTGATGAATCAAGAAAGGCGAAAAGGCT
AAACCGGTGACAGATCCAAGGTACATTCCGCTGTAAACAAGCGCGAGTGATCTGCTTCTCTCTT
GCACAGGAACCCACTTCGACAATATATTATTCATAGCAGGCATTGCAACACCCTCTCCAACTCC
CATGAAAGCACGAACAACGAGCAAGTAAGGAAGACCGAGTTTAGCAGCTACAGGAGTGAGAATT
GTAGCGATTGACCACCAAATAACACCGAATCCAAGAACCCTTTTCCCTCCTACAGTGTCTGCCC
AAATTCCACCAGCTATCTGTGTAAGAAGGTAACCCCAGAAGAAAGAAGACTGAATCAGACCAAC
TGTTGCTGGATTCCAACCATACTCAGCTGACATCGGAAGTATAGCTATACTCATATTCAC
						
					

						Genomic sequence
						
							CTTGCGGACATTCGTGACAGAGAAACCTCGGCTGACAAGTGTATCGGCAATCCATCCACCGGCA
TTTGCAGATATTGCCATTGTCATCCATGGAAATACAGAGAGAAGTCCTGACTCCATAAGGTTGA
ACTTCAGCACCTGCCTCACAACCGTCCATATGATTAATGATAAGAAAACAAATAAAACATCAAG
CCTCTTGATTAAAAGACAGTAATATAACGGACTTGATGGTAATAAGTTGGCATCCATGTTAAGA
GAATGAATGTTCCCCAGTTGTGACAAAAGTGGCAACTGATGAGAGCCCAAACCGGTGGTTTCGA
CAATATCAGCCTCCACGGGATCGACTTCACTGGCTCTTTGCTAGCACAGTTGTCTGCAATTAGC
TTTCTTTCTTCAGGGAGCAATGTTGGATCTTCTAATGGTGAACTCTCTGCCTATAACAAGTAAC
AACACACGTCAAATCGTCAATGGTAATGAGATATGGGATCTACAAATAGTTAAGAACAGTAGAA
AAAGTCTGACCTTAGTTAGCCACAGAGTCAACCATACAGTTCCAAGAGACCCGAAAGAATAAAA
CACAGAAGGCCATCCAAATTGATGAATCAAGAAAGGCGAAAAGGCTAAACCGGTGACAGATCCA
AGGTACATTCCGCTGTAAACAAGCGCGAGTGATCTGCTTCTCTCTTGCACAGGAACCCACTTCG
ACAATATATTATTCATAGCAGGCATTGCAACACCCTGGAGAACACAAATGAGAACTTACTTCTC
CTTATCAACACACACAAATCCGAGACTGATATCTAACATCACTAAGAGTAATCACAAACCTCTC
CAACTCCCATGAAAGCACGAACAACGAGCAAGTAAGGAAGACCGAGTTTAGCAGCTACAGGAGT
GAGAATTGTAGCGATTGACCACCAAATAACACCGAATCCAAGAACCCTTTTCCCTCCTACAGTG
TCTGCCCAAATTCCACCAGCTATCTATAATATCAACAAACCACTGATTCAACTACACTTTTGAT
TTAAATGTGAAAGCTAGTGAGACTCATTTAAAAAAACATTGATCATCTAAAAATAGAAACCCTA
ATTAAGGAATCAGGGAAAAAAGATTACCTGTGTAAGAAGGTAACCCCAGAAGAAAGAAGACTGA
ATCAGACCAACTGTTGCTGGATTCCAACCATACTCAGCTGACATCGGAAGTATAGCTATACTCA
TATTCAC
						
					

			
		

Sequences
Splice junction sequence	GAAGGTAACCCCAGAAGAAAGAAGACTGAATCAGACCAACTGTTGCTGGATTCCAACCATACTC AGCTGACATCGGAAGTATAGCTATACTCATATTCACcttgcggacattcgtgacagagaaacct cggctgacaagtgtatcggcaatccatccaccggcatttgcagatattgccattgtcatccatg gaaataca
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: 828 Transcript exons: 12674346-12674483,12674570-12674779,12674868-12675083,12 675173-12675328,12675461-12675568 CTTGCGGACATTCGTGACAGAGAAACCTCGGCTGACAAGTGTATCGGCAATCCATCCACCGGCA TTTGCAGATATTGCCATTGTCATCCATGGAAATACAGAGAGAAGTCCTGACTCCATAAGGTTGA ACTTCAGCACTTGATGGTAATAAGTTGGCATCCATGTTAAGAGAATGAATGTTCCCCAGTTGTG ACAAAAGTGGCAACTGATGAGAGCCCAAACCGGTGGTTTCGACAATATCAGCCTCCACGGGATC GACTTCACTGGCTCTTTGCTAGCACAGTTGTCTGCAATTAGCTTTCTTTCTTCAGGGAGCAATG TTGGATCTTCTAATGGTGAACTCTCTGCCTTAGTTAGCCACAGAGTCAACCATACAGTTCCAAG AGACCCGAAAGAATAAAACACAGAAGGCCATCCAAATTGATGAATCAAGAAAGGCGAAAAGGCT AAACCGGTGACAGATCCAAGGTACATTCCGCTGTAAACAAGCGCGAGTGATCTGCTTCTCTCTT GCACAGGAACCCACTTCGACAATATATTATTCATAGCAGGCATTGCAACACCCTCTCCAACTCC CATGAAAGCACGAACAACGAGCAAGTAAGGAAGACCGAGTTTAGCAGCTACAGGAGTGAGAATT GTAGCGATTGACCACCAAATAACACCGAATCCAAGAACCCTTTTCCCTCCTACAGTGTCTGCCC AAATTCCACCAGCTATCTGTGTAAGAAGGTAACCCCAGAAGAAAGAAGACTGAATCAGACCAAC TGTTGCTGGATTCCAACCATACTCAGCTGACATCGGAAGTATAGCTATACTCATATTCAC
Genomic sequence	CTTGCGGACATTCGTGACAGAGAAACCTCGGCTGACAAGTGTATCGGCAATCCATCCACCGGCA TTTGCAGATATTGCCATTGTCATCCATGGAAATACAGAGAGAAGTCCTGACTCCATAAGGTTGA ACTTCAGCACCTGCCTCACAACCGTCCATATGATTAATGATAAGAAAACAAATAAAACATCAAG CCTCTTGATTAAAAGACAGTAATATAACGGACTTGATGGTAATAAGTTGGCATCCATGTTAAGA GAATGAATGTTCCCCAGTTGTGACAAAAGTGGCAACTGATGAGAGCCCAAACCGGTGGTTTCGA CAATATCAGCCTCCACGGGATCGACTTCACTGGCTCTTTGCTAGCACAGTTGTCTGCAATTAGC TTTCTTTCTTCAGGGAGCAATGTTGGATCTTCTAATGGTGAACTCTCTGCCTATAACAAGTAAC AACACACGTCAAATCGTCAATGGTAATGAGATATGGGATCTACAAATAGTTAAGAACAGTAGAA AAAGTCTGACCTTAGTTAGCCACAGAGTCAACCATACAGTTCCAAGAGACCCGAAAGAATAAAA CACAGAAGGCCATCCAAATTGATGAATCAAGAAAGGCGAAAAGGCTAAACCGGTGACAGATCCA AGGTACATTCCGCTGTAAACAAGCGCGAGTGATCTGCTTCTCTCTTGCACAGGAACCCACTTCG ACAATATATTATTCATAGCAGGCATTGCAACACCCTGGAGAACACAAATGAGAACTTACTTCTC CTTATCAACACACACAAATCCGAGACTGATATCTAACATCACTAAGAGTAATCACAAACCTCTC CAACTCCCATGAAAGCACGAACAACGAGCAAGTAAGGAAGACCGAGTTTAGCAGCTACAGGAGT GAGAATTGTAGCGATTGACCACCAAATAACACCGAATCCAAGAACCCTTTTCCCTCCTACAGTG TCTGCCCAAATTCCACCAGCTATCTATAATATCAACAAACCACTGATTCAACTACACTTTTGAT TTAAATGTGAAAGCTAGTGAGACTCATTTAAAAAAACATTGATCATCTAAAAATAGAAACCCTA ATTAAGGAATCAGGGAAAAAAGATTACCTGTGTAAGAAGGTAACCCCAGAAGAAAGAAGACTGA ATCAGACCAACTGTTGCTGGATTCCAACCATACTCAGCTGACATCGGAAGTATAGCTATACTCA TATTCAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.2570649

Conservation Information
Conserved circRNAs	NA
PMCS	0.2570649

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							12675563-12674348(-)
						
						Potential amino acid sequence
						
							MSIAILPMSAEYGWNPATVGLIQSSFFWGYLLTQIAGGIWADTVGGKRVLGFGVIWWSIATILT
PVAAKLGLPYLLVVRAFMGVGEGVAMPAMNNILSKWVPVQERSRSLALVYSGMYLGSVTGLAFS
PFLIHQFGWPSVFYSFGSLGTVWLTLWLTKAESSPLEDPTLLPEERKLIADNCASKEPVKSIPW
RLILSKPPVWALISCHFCHNWGTFILLTWMPTYYHQVLKFNLMESGLLSVFPWMTMAISANAGG
WIADTLVSRGFSVTNVRKVNMSIAILPMSAEYGWNPATVGLIQSSFFWGYLLTQIAGGIWADTV
GGKRVLGFGVIWWSIATILTPVAAKLGLPYLLVVRAFMGVGEGVAMPAMNNILSKWVPVQERSR
SLALVYSGMYLGSVTGLAFSPFLIHQFGWPSVFYSFGSLGTVWLTLWLTKAESSPLEDPTLLPE
ERKLIADNCASKEPVKSIPWRLILSKPPVWALISCHFCHNWGTFILLTWMPTYYHQVLKFNLME
SGLLSVFPWMTMAISANAGGWIADTLVSRGFSVTNVRKVNMSIAILPMSAEYGWNPATVGLIQS
SFFWGYLLTQIAGGIWADTVGGKRVLGFGVIWWSIATILTPVAAKLGLPYLLVVRAFMGVGEGV
AMPAMNNILSKWVPVQERSRSLALVYSGMYLGSVTGLAFSPFLIHQFGWPSVFYSFGSLGTVWL
TLWLTKAESSPLEDPTLLPEERKLIADNCASKEPVKSIPWRLILSKPPVWALISCHFCHNWGTF
ILLTWMPTYYHQVLKFNLMESGLLSVFPWMTMAISANAGGWIADTLVSRGFSVTNVRKVNMSIA
ILPMSAEYGWNPATVGLIQSSFFWGYLLTQIAGGIWADTVGGKRVLGFGVIWWSIATILTPVAA
KLGLPYLLVVRAFMGVGEGVAMPAMNNILSKWVPVQERSRSLALVYSGMYLGSVTGLAFSPFLI
HQFGWPSVFYSFGSLGTVWLTLWLTKAESSPLEDPTLLPEERKLIADNCASKEPVKSIPWRLIL
SKPPVWALISCHFCHNWGTFILLTWMPTYYHQVLKFNLMESGLLSVFPWMTMAISANAGGWIAD
TLVSRGFSVTNVRK(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	12675563-12674348(-)
Potential amino acid sequence	MSIAILPMSAEYGWNPATVGLIQSSFFWGYLLTQIAGGIWADTVGGKRVLGFGVIWWSIATILT PVAAKLGLPYLLVVRAFMGVGEGVAMPAMNNILSKWVPVQERSRSLALVYSGMYLGSVTGLAFS PFLIHQFGWPSVFYSFGSLGTVWLTLWLTKAESSPLEDPTLLPEERKLIADNCASKEPVKSIPW RLILSKPPVWALISCHFCHNWGTFILLTWMPTYYHQVLKFNLMESGLLSVFPWMTMAISANAGG WIADTLVSRGFSVTNVRKVNMSIAILPMSAEYGWNPATVGLIQSSFFWGYLLTQIAGGIWADTV GGKRVLGFGVIWWSIATILTPVAAKLGLPYLLVVRAFMGVGEGVAMPAMNNILSKWVPVQERSR SLALVYSGMYLGSVTGLAFSPFLIHQFGWPSVFYSFGSLGTVWLTLWLTKAESSPLEDPTLLPE ERKLIADNCASKEPVKSIPWRLILSKPPVWALISCHFCHNWGTFILLTWMPTYYHQVLKFNLME SGLLSVFPWMTMAISANAGGWIADTLVSRGFSVTNVRKVNMSIAILPMSAEYGWNPATVGLIQS SFFWGYLLTQIAGGIWADTVGGKRVLGFGVIWWSIATILTPVAAKLGLPYLLVVRAFMGVGEGV AMPAMNNILSKWVPVQERSRSLALVYSGMYLGSVTGLAFSPFLIHQFGWPSVFYSFGSLGTVWL TLWLTKAESSPLEDPTLLPEERKLIADNCASKEPVKSIPWRLILSKPPVWALISCHFCHNWGTF ILLTWMPTYYHQVLKFNLMESGLLSVFPWMTMAISANAGGWIADTLVSRGFSVTNVRKVNMSIA ILPMSAEYGWNPATVGLIQSSFFWGYLLTQIAGGIWADTVGGKRVLGFGVIWWSIATILTPVAA KLGLPYLLVVRAFMGVGEGVAMPAMNNILSKWVPVQERSRSLALVYSGMYLGSVTGLAFSPFLI HQFGWPSVFYSFGSLGTVWLTLWLTKAESSPLEDPTLLPEERKLIADNCASKEPVKSIPWRLIL SKPPVWALISCHFCHNWGTFILLTWMPTYYHQVLKFNLMESGLLSVFPWMTMAISANAGGWIAD TLVSRGFSVTNVRK(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Pan et al., 2017

circRNA

Detail information of AT2G29650_circ_g.5

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