Plant Circular RNA Database

Detail information of Zm00001d027392_circ_g.6

			
						 General Information
					
						CircRNA Name
						Zm00001d027392_circ_g.6
					
						ID in PlantcircBase
						zma_circ_006359
					
						Alias
						Zm01circ00012
					
						Organism
						
							Zea mays						
					
						Position
						
							chr1: 4245157-4282462  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRI2
					
						Parent gene
						
							Zm00001d027392						
					
						Parent gene annotation
						
							Callose synthase 9
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Zm00001d027392_circ_g.3 Zm00001d027392_circ_g.4 Zm00001d027392_circ_g.5 Zm00001d027392_circ_g.7 Zm00001d027392_circ_g.8 Zm00001d027392_circ_g.9 Zm00001d027392_circ_g.10 						
					
						Support reads
						NA
					
						Tissues
						leaf, endosperm
					
						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
						Zm00001d027392_T055:25
Zm00001d027392_T059:25
Zm00001d027392_T003:25
Zm00001d027392_T069:17
Zm00001d027392_T004:25
Zm00001d027392_T065:25
Zm00001d027392_T070:18
Zm00001d027392_T054:25
Zm00001d027392_T049:26
Zm00001d027392_T002:25
Zm00001d027392_T068:17
Zm00001d027392_T030:25
Zm00001d027392_T045:25
Zm00001d027392_T036:25
Zm00001d027392_T067:20
Zm00001d027392_T007:25
Zm00001d027392_T012:25
Zm00001d027392_T034:25
Zm00001d027392_T042:25
Zm00001d027392_T016:25
Zm00001d027392_T006:25
Zm00001d027392_T060:25
Zm00001d027392_T020:25
Zm00001d027392_T051:25
Zm00001d027392_T033:25
Zm00001d027392_T029:25
Zm00001d027392_T050:25
Zm00001d027392_T062:25
Zm00001d027392_T056:25
Zm00001d027392_T019:25
Zm00001d027392_T011:23
Zm00001d027392_T046:25
Zm00001d027392_T038:25
Zm00001d027392_T071:13
Zm00001d027392_T041:25
Zm00001d027392_T025:25
Zm00001d027392_T015:25
Zm00001d027392_T023:25
Zm00001d027392_T027:24
Zm00001d027392_T064:25
Zm00001d027392_T052:25

General Information
CircRNA Name	Zm00001d027392_circ_g.6
ID in PlantcircBase	zma_circ_006359
Alias	Zm01circ00012
Organism	Zea mays
Position	chr1: 4245157-4282462 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	CIRI2
Parent gene	Zm00001d027392
Parent gene annotation	Callose synthase 9
Parent gene strand	+
Alternative splicing	Zm00001d027392_circ_g.3 Zm00001d027392_circ_g.4 Zm00001d027392_circ_g.5 Zm00001d027392_circ_g.7 Zm00001d027392_circ_g.8 Zm00001d027392_circ_g.9 Zm00001d027392_circ_g.10
Support reads	NA
Tissues	leaf, endosperm
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	Zm00001d027392_T055:25 Zm00001d027392_T059:25 Zm00001d027392_T003:25 Zm00001d027392_T069:17 Zm00001d027392_T004:25 Zm00001d027392_T065:25 Zm00001d027392_T070:18 Zm00001d027392_T054:25 Zm00001d027392_T049:26 Zm00001d027392_T002:25 Zm00001d027392_T068:17 Zm00001d027392_T030:25 Zm00001d027392_T045:25 Zm00001d027392_T036:25 Zm00001d027392_T067:20 Zm00001d027392_T007:25 Zm00001d027392_T012:25 Zm00001d027392_T034:25 Zm00001d027392_T042:25 Zm00001d027392_T016:25 Zm00001d027392_T006:25 Zm00001d027392_T060:25 Zm00001d027392_T020:25 Zm00001d027392_T051:25 Zm00001d027392_T033:25 Zm00001d027392_T029:25 Zm00001d027392_T050:25 Zm00001d027392_T062:25 Zm00001d027392_T056:25 Zm00001d027392_T019:25 Zm00001d027392_T011:23 Zm00001d027392_T046:25 Zm00001d027392_T038:25 Zm00001d027392_T071:13 Zm00001d027392_T041:25 Zm00001d027392_T025:25 Zm00001d027392_T015:25 Zm00001d027392_T023:25 Zm00001d027392_T027:24 Zm00001d027392_T064:25 Zm00001d027392_T052:25

			
						 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  
						
							GATTGTAGTGCAGATCTTACTGATGCATTTGCATCTATGAACTGCAGGATTCAACTCAACTCTG
CGTCAAGGATGCATAACTCATCATGAATATATTCAGcaagacacttcaagatggcacagagtca
gcaacattcaagatatatgtttttgtaatcagtgcatatgtgggcattaagataattttcagcc
tacttatg

						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
						
							TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.

Sequences
Splice junction sequence	GATTGTAGTGCAGATCTTACTGATGCATTTGCATCTATGAACTGCAGGATTCAACTCAACTCTG CGTCAAGGATGCATAACTCATCATGAATATATTCAGcaagacacttcaagatggcacagagtca gcaacattcaagatatatgtttttgtaatcagtgcatatgtgggcattaagataattttcagcc tacttatg
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	TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.015950308

Conservation Information
Conserved circRNAs	NA
PMCS	0.015950308

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							4245255-4245231(+)
4282450-4245231(+)
						
					

						Potential amino acid sequence
						
							MSVPCCHGLAEACYRWSAVRLVKWMHQENNYVGRGMHESPLDYIKYATFWIAILGAKFSFTYFL
QIKPLVEPTRTIINFTGLQYAWHDFFSKNNHNALTILSLWAPVLSIYLLDIHVFYTVLSAIYGF
LLGARDRLGEISTVEAVHRFFEKFPGAFMHRLHVEVPKRKQLLSSGQEIELNKFDASRFSPFWN
EIVRNLREEDYINNFELELLLMPKNDVGVLPIVQWPVFLLASKVFLAKEIAEDCKDSQEELWLR
ISKDEYMQYAVVESFHSIYHILTSILEKEGRLWVERIYGGIRDSISKRTIQSDLHFKKLLNVIA
KLVAVLGILRGTTESSDLKKGLVNAIQDLYDVVHHEAFSVDMSGHIEDWDQINLARAEGRLFNK
LKWPNDPKLKDLIKRLYSLLTIKESAATVPKNLEARRRLQFFTNSLFMEMPVARPVSEMVSFSV
FTPYYSEIVLYSMAELQKKNEDGITTLFYLQKIYPDEWKNFLTRINRDENAADSELFGNPNDIL
ELRLWASYRGQTLARTVRGMMYYRKALMLQSYLERIQSEDLESTLGLAGSADRHFELSPEARAQ
ADLKFTYVVTCQIYGKQKGEGKAEAADIALLMQRNEALRVAYIDEVENAKNGKPITEYYSKLVK
ADIHGKDKEIYSIKLPGNPKLGEGKPENQNHAIIFTRGNAVQTIDMNQDNYFEEALKMRNLLEE
FSLKRGKHYPSILGVREHVFTGSVSSLASFMSNQETSFVTLGQRVLANPLKVRMHYGHPDVFDR
IFHITRGGISKASRSINISEDIYAGFNSTLRQGCITHHEYIQQDTSRWHRVSNIQDICFCNQCI
CGH*(+)
MNIFSKTLQDGTESATFKIYVFVISAYVGIKIIFSLLMSVPCCHGLAEACYRWSAVRLVKWMHQ
ENNYVGRGMHESPLDYIKYATFWIAILGAKFSFTYFLQIKPLVEPTRTIINFTGLQYAWHDFFS
KNNHNALTILSLWAPVLSIYLLDIHVFYTVLSAIYGFLLGARDRLGEISTVEAVHRFFEKFPGA
FMHRLHVEVPKRKQLLSSGQEIELNKFDASRFSPFWNEIVRNLREEDYINNFELELLLMPKNDV
GVLPIVQWPVFLLASKVFLAKEIAEDCKDSQEELWLRISKDEYMQYAVVESFHSIYHILTSILE
KEGRLWVERIYGGIRDSISKRTIQSDLHFKKLLNVIAKLVAVLGILRGTTESSDLKKGLVNAIQ
DLYDVVHHEAFSVDMSGHIEDWDQINLARAEGRLFNKLKWPNDPKLKDLIKRLYSLLTIKESAA
TVPKNLEARRRLQFFTNSLFMEMPVARPVSEMVSFSVFTPYYSEIVLYSMAELQKKNEDGITTL
FYLQKIYPDEWKNFLTRINRDENAADSELFGNPNDILELRLWASYRGQTLARTVRGMMYYRKAL
MLQSYLERIQSEDLESTLGLAGSADRHFELSPEARAQADLKFTYVVTCQIYGKQKGEGKAEAAD
IALLMQRNEALRVAYIDEVENAKNGKPITEYYSKLVKADIHGKDKEIYSIKLPGNPKLGEGKPE
NQNHAIIFTRGNAVQTIDMNQDNYFEEALKMRNLLEEFSLKRGKHYPSILGVREHVFTGSVSSL
ASFMSNQETSFVTLGQRVLANPLKVRMHYGHPDVFDRIFHITRGGISKASRSINISEDIYAGFN
STLRQGCITHHEYIQQDTSRWHRVSNIQDICFCNQCICGH*(+)
						
					

						Sponge-miRNAs
						
							zma-miR159a-3p 						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	4245255-4245231(+) 4282450-4245231(+)
Potential amino acid sequence	MSVPCCHGLAEACYRWSAVRLVKWMHQENNYVGRGMHESPLDYIKYATFWIAILGAKFSFTYFL QIKPLVEPTRTIINFTGLQYAWHDFFSKNNHNALTILSLWAPVLSIYLLDIHVFYTVLSAIYGF LLGARDRLGEISTVEAVHRFFEKFPGAFMHRLHVEVPKRKQLLSSGQEIELNKFDASRFSPFWN EIVRNLREEDYINNFELELLLMPKNDVGVLPIVQWPVFLLASKVFLAKEIAEDCKDSQEELWLR ISKDEYMQYAVVESFHSIYHILTSILEKEGRLWVERIYGGIRDSISKRTIQSDLHFKKLLNVIA KLVAVLGILRGTTESSDLKKGLVNAIQDLYDVVHHEAFSVDMSGHIEDWDQINLARAEGRLFNK LKWPNDPKLKDLIKRLYSLLTIKESAATVPKNLEARRRLQFFTNSLFMEMPVARPVSEMVSFSV FTPYYSEIVLYSMAELQKKNEDGITTLFYLQKIYPDEWKNFLTRINRDENAADSELFGNPNDIL ELRLWASYRGQTLARTVRGMMYYRKALMLQSYLERIQSEDLESTLGLAGSADRHFELSPEARAQ ADLKFTYVVTCQIYGKQKGEGKAEAADIALLMQRNEALRVAYIDEVENAKNGKPITEYYSKLVK ADIHGKDKEIYSIKLPGNPKLGEGKPENQNHAIIFTRGNAVQTIDMNQDNYFEEALKMRNLLEE FSLKRGKHYPSILGVREHVFTGSVSSLASFMSNQETSFVTLGQRVLANPLKVRMHYGHPDVFDR IFHITRGGISKASRSINISEDIYAGFNSTLRQGCITHHEYIQQDTSRWHRVSNIQDICFCNQCI CGH(+) MNIFSKTLQDGTESATFKIYVFVISAYVGIKIIFSLLMSVPCCHGLAEACYRWSAVRLVKWMHQ ENNYVGRGMHESPLDYIKYATFWIAILGAKFSFTYFLQIKPLVEPTRTIINFTGLQYAWHDFFS KNNHNALTILSLWAPVLSIYLLDIHVFYTVLSAIYGFLLGARDRLGEISTVEAVHRFFEKFPGA FMHRLHVEVPKRKQLLSSGQEIELNKFDASRFSPFWNEIVRNLREEDYINNFELELLLMPKNDV GVLPIVQWPVFLLASKVFLAKEIAEDCKDSQEELWLRISKDEYMQYAVVESFHSIYHILTSILE KEGRLWVERIYGGIRDSISKRTIQSDLHFKKLLNVIAKLVAVLGILRGTTESSDLKKGLVNAIQ DLYDVVHHEAFSVDMSGHIEDWDQINLARAEGRLFNKLKWPNDPKLKDLIKRLYSLLTIKESAA TVPKNLEARRRLQFFTNSLFMEMPVARPVSEMVSFSVFTPYYSEIVLYSMAELQKKNEDGITTL FYLQKIYPDEWKNFLTRINRDENAADSELFGNPNDILELRLWASYRGQTLARTVRGMMYYRKAL MLQSYLERIQSEDLESTLGLAGSADRHFELSPEARAQADLKFTYVVTCQIYGKQKGEGKAEAAD IALLMQRNEALRVAYIDEVENAKNGKPITEYYSKLVKADIHGKDKEIYSIKLPGNPKLGEGKPE NQNHAIIFTRGNAVQTIDMNQDNYFEEALKMRNLLEEFSLKRGKHYPSILGVREHVFTGSVSSL ASFMSNQETSFVTLGQRVLANPLKVRMHYGHPDVFDRIFHITRGGISKASRSINISEDIYAGFN STLRQGCITHHEYIQQDTSRWHRVSNIQDICFCNQCICGH(+)
Sponge-miRNAs	zma-miR159a-3p
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Han et al., 2020

circRNA

Detail information of Zm00001d027392_circ_g.6

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