Plant Circular RNA Database

Detail information of Zm00001d027392_circ_g.4

			
						 General Information
					
						CircRNA Name
						Zm00001d027392_circ_g.4
					
						ID in PlantcircBase
						zma_circ_006357
					
						Alias
						Zm01circ00010, zma_circ_0000023, ZmciR75
					
						Organism
						
							Zea mays						
					
						Position
						
							chr1: 4245157-4256569  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRI2, find_circ
					
						Parent gene
						
							Zm00001d027392						
					
						Parent gene annotation
						
							Callose synthase 9
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Zm00001d027392_circ_g.3 Zm00001d027392_circ_g.5 Zm00001d027392_circ_g.6 Zm00001d027392_circ_g.7 Zm00001d027392_circ_g.8 Zm00001d027392_circ_g.9 Zm00001d027392_circ_g.10 						
					
						Support reads
						NA
					
						Tissues
						leaf, endosperm, root
					
						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_T007:11
Zm00001d027392_T012:11
Zm00001d027392_T065:11
Zm00001d027392_T020:11
Zm00001d027392_T011:9
Zm00001d027392_T042:11
Zm00001d027392_T036:11
Zm00001d027392_T052:11
Zm00001d027392_T049:12
Zm00001d027392_T027:10
Zm00001d027392_T055:11
Zm00001d027392_T034:11
Zm00001d027392_T059:11
Zm00001d027392_T041:11
Zm00001d027392_T030:11
Zm00001d027392_T023:11
Zm00001d027392_T002:11
Zm00001d027392_T006:11
Zm00001d027392_T070:3
Zm00001d027392_T068:3
Zm00001d027392_T038:11
Zm00001d027392_T051:11
Zm00001d027392_T067:6
Zm00001d027392_T054:11
Zm00001d027392_T064:11
Zm00001d027392_T033:11
Zm00001d027392_T029:11
Zm00001d027392_T016:11
Zm00001d027392_T045:11
Zm00001d027392_T056:11
Zm00001d027392_T050:11
Zm00001d027392_T015:11
Zm00001d027392_T046:11
Zm00001d027392_T025:11
Zm00001d027392_T069:3
Zm00001d027392_T004:11
Zm00001d027392_T003:11
Zm00001d027392_T062:11
Zm00001d027392_T019:11
Zm00001d027392_T060:11

General Information
CircRNA Name	Zm00001d027392_circ_g.4
ID in PlantcircBase	zma_circ_006357
Alias	Zm01circ00010, zma_circ_0000023, ZmciR75
Organism	Zea mays
Position	chr1: 4245157-4256569 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	CIRI2, find_circ
Parent gene	Zm00001d027392
Parent gene annotation	Callose synthase 9
Parent gene strand	+
Alternative splicing	Zm00001d027392_circ_g.3 Zm00001d027392_circ_g.5 Zm00001d027392_circ_g.6 Zm00001d027392_circ_g.7 Zm00001d027392_circ_g.8 Zm00001d027392_circ_g.9 Zm00001d027392_circ_g.10
Support reads	NA
Tissues	leaf, endosperm, root
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_T007:11 Zm00001d027392_T012:11 Zm00001d027392_T065:11 Zm00001d027392_T020:11 Zm00001d027392_T011:9 Zm00001d027392_T042:11 Zm00001d027392_T036:11 Zm00001d027392_T052:11 Zm00001d027392_T049:12 Zm00001d027392_T027:10 Zm00001d027392_T055:11 Zm00001d027392_T034:11 Zm00001d027392_T059:11 Zm00001d027392_T041:11 Zm00001d027392_T030:11 Zm00001d027392_T023:11 Zm00001d027392_T002:11 Zm00001d027392_T006:11 Zm00001d027392_T070:3 Zm00001d027392_T068:3 Zm00001d027392_T038:11 Zm00001d027392_T051:11 Zm00001d027392_T067:6 Zm00001d027392_T054:11 Zm00001d027392_T064:11 Zm00001d027392_T033:11 Zm00001d027392_T029:11 Zm00001d027392_T016:11 Zm00001d027392_T045:11 Zm00001d027392_T056:11 Zm00001d027392_T050:11 Zm00001d027392_T015:11 Zm00001d027392_T046:11 Zm00001d027392_T025:11 Zm00001d027392_T069:3 Zm00001d027392_T004:11 Zm00001d027392_T003:11 Zm00001d027392_T062:11 Zm00001d027392_T019:11 Zm00001d027392_T060:11

			
						 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  
						
							GGATATCGAAGGATGAATACATGCAATATGCTGTTGTAGAGTCCTTCCATAGCATTTATCATAT
TCTGACGTCTATACTAGAGAAAGAAGGCCGCCTCTGcaagacacttcaagatggcacagagtca
gcaacattcaagatatatgtttttgtaatcagtgcatatgtgggcattaagataattttcagcc
tacttatg

						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: 963
Transcript exons: 4245157-4245334,4245430-4245482,4245565-4245625,4245702-
4245783,4245975-4246024,4246249-4246335,4252855-4252940,
4253018-4253042,4256036-4256130,4256215-4256299,4256409-
4256569
CAAGACACTTCAAGATGGCACAGAGTCAGCAACATTCAAGATATATGTTTTTGTAATCAGTGCA
TATGTGGGCATTAAGATAATTTTCAGCCTACTTATGAGTGTCCCTTGTTGCCATGGTTTGGCTG
AGGCTTGCTATCGCTGGTCTGCTGTACGCCTTGTTAAGTGGATGCATCAGGAGAATAATTATGT
TGGAAGAGGCATGCATGAGAGTCCCCTTGACTATATCAAATACGCCACTTTCTGGATTGCAATT
CTTGGTGCAAAATTTTCATTCACCTATTTTCTTCAGATAAAACCTCTTGTAGAACCAACAAGAA
CTATAATCAATTTCACTGGCCTGCAGTATGCTTGGCATGATTTTTTCTCGAAGAATAATCATAA
TGCTCTTACAATCCTTTCTTTATGGGCTCCAGTGCTGTCAATTTACCTTTTGGACATTCATGTA
TTCTACACTGTATTGTCTGCTATTTATGGATTTCTCCTTGGTGCACGTGATCGCCTGGGAGAGA
TTAGTACTGTCGAGGCTGTTCACAGATTCTTTGAGAAGTTTCCTGGAGCATTCATGCATAGACT
TCATGTTGAGGTTCCCAAAAGGAAGCAACTGCTATCTTCTGGTCAGGAAATAGAGTTAAACAAG
TTTGACGCATCTAGATTCTCCCCCTTCTGGAATGAAATAGTGAGGAATTTAAGGGAAGAGGATT
ATATTAATAATTTTGAACTAGAATTGCTTTTGATGCCCAAGAATGACGTTGGAGTTCTACCGAT
TGTGCAATGGCCAGTTTTCTTGCTTGCTAGCAAGGTTTTCTTGGCCAAAGAGATTGCAGAGGAC
TGCAAAGACTCACAAGAAGAACTTTGGTTAAGGATATCGAAGGATGAATACATGCAATATGCTG
TTGTAGAGTCCTTCCATAGCATTTATCATATTCTGACGTCTATACTAGAGAAAGAAGGCCGCCT
CTG
						
						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	GGATATCGAAGGATGAATACATGCAATATGCTGTTGTAGAGTCCTTCCATAGCATTTATCATAT TCTGACGTCTATACTAGAGAAAGAAGGCCGCCTCTGcaagacacttcaagatggcacagagtca gcaacattcaagatatatgtttttgtaatcagtgcatatgtgggcattaagataattttcagcc tacttatg
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: 963 Transcript exons: 4245157-4245334,4245430-4245482,4245565-4245625,4245702- 4245783,4245975-4246024,4246249-4246335,4252855-4252940, 4253018-4253042,4256036-4256130,4256215-4256299,4256409- 4256569 CAAGACACTTCAAGATGGCACAGAGTCAGCAACATTCAAGATATATGTTTTTGTAATCAGTGCA TATGTGGGCATTAAGATAATTTTCAGCCTACTTATGAGTGTCCCTTGTTGCCATGGTTTGGCTG AGGCTTGCTATCGCTGGTCTGCTGTACGCCTTGTTAAGTGGATGCATCAGGAGAATAATTATGT TGGAAGAGGCATGCATGAGAGTCCCCTTGACTATATCAAATACGCCACTTTCTGGATTGCAATT CTTGGTGCAAAATTTTCATTCACCTATTTTCTTCAGATAAAACCTCTTGTAGAACCAACAAGAA CTATAATCAATTTCACTGGCCTGCAGTATGCTTGGCATGATTTTTTCTCGAAGAATAATCATAA TGCTCTTACAATCCTTTCTTTATGGGCTCCAGTGCTGTCAATTTACCTTTTGGACATTCATGTA TTCTACACTGTATTGTCTGCTATTTATGGATTTCTCCTTGGTGCACGTGATCGCCTGGGAGAGA TTAGTACTGTCGAGGCTGTTCACAGATTCTTTGAGAAGTTTCCTGGAGCATTCATGCATAGACT TCATGTTGAGGTTCCCAAAAGGAAGCAACTGCTATCTTCTGGTCAGGAAATAGAGTTAAACAAG TTTGACGCATCTAGATTCTCCCCCTTCTGGAATGAAATAGTGAGGAATTTAAGGGAAGAGGATT ATATTAATAATTTTGAACTAGAATTGCTTTTGATGCCCAAGAATGACGTTGGAGTTCTACCGAT TGTGCAATGGCCAGTTTTCTTGCTTGCTAGCAAGGTTTTCTTGGCCAAAGAGATTGCAGAGGAC TGCAAAGACTCACAAGAAGAACTTTGGTTAAGGATATCGAAGGATGAATACATGCAATATGCTG TTGTAGAGTCCTTCCATAGCATTTATCATATTCTGACGTCTATACTAGAGAAAGAAGGCCGCCT CTG
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
						0.083205176

Conservation Information
Conserved circRNAs	NA
PMCS	0.083205176

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							4245255-4256566(+)
4245193-4256544(-)
						
						Potential amino acid sequence
						
							MSVPCCHGLAEACYRWSAVRLVKWMHQENNYVGRGMHESPLDYIKYATFWIAILGAKFSFTYFL
QIKPLVEPTRTIINFTGLQYAWHDFFSKNNHNALTILSLWAPVLSIYLLDIHVFYTVLSAIYGF
LLGARDRLGEISTVEAVHRFFEKFPGAFMHRLHVEVPKRKQLLSSGQEIELNKFDASRFSPFWN
EIVRNLREEDYINNFELELLLMPKNDVGVLPIVQWPVFLLASKVFLAKEIAEDCKDSQEELWLR
ISKDEYMQYAVVESFHSIYHILTSILEKEGRLCKTLQDGTESATFKIYVFVISAYVGIKIIFSL
LMSVPCCHGLAEACYRWSAVRLVKWMHQENNYVGRGMHESPLDYIKYATFWIAILGAKFSFTYF
LQIKPLVEPTRTIINFTGLQYAWHDFFSKNNHNALTILSLWAPVLSIYLLDIHVFYTVLSAIYG
FLLGARDRLGEISTVEAVHRFFEKFPGAFMHRLHVEVPKRKQLLSSGQEIELNKFDASRFSPFW
NEIVRNLREEDYINNFELELLLMPKNDVGVLPIVQWPVFLLASKVFLAKEIAEDCKDSQEELWL
RISKDEYMQYAVVESFHSIYHILTSILEKEGRLCKTLQDGTESATFKIYVFVISAYVGIKIIFS
LLMSVPCCHGLAEACYRWSAVRLVKWMHQENNYVGRGMHESPLDYIKYATFWIAILGAKFSFTY
FLQIKPLVEPTRTIINFTGLQYAWHDFFSKNNHNALTILSLWAPVLSIYLLDIHVFYTVLSAIY
GFLLGARDRLGEISTVEAVHRFFEKFPGAFMHRLHVEVPKRKQLLSSGQEIELNKFDASRFSPF
WNEIVRNLREEDYINNFELELLLMPKNDVGVLPIVQWPVFLLASKVFLAKEIAEDCKDSQEELW
LRISKDEYMQYAVVESFHSIYHILTSILEKEGRLCKTLQDGTESATFKIYVFVISAYVGIKIIF
SLLMSVPCCHGLAEACYRWSAVRLVKWMHQENNYVGRGMHESPLDYIKYATFWIAILGAKFSFT
YFLQIKPLVEPTRTIINFTGLQYAWHDFFSKNNHNALTILSLWAPVLSIYLLDIHVFYTVLSAI
YGFLLGARDRLGEISTVEAVHRFFEKFPGAFMHRLHVEVPKRKQLLSSGQEIELNKFDASRFSP
FWNEIVRNLREEDYINNFELELLLMPKNDVGVLPIVQWPVFLLASKVFLAKEIAEDCKDSQEEL
WLRISKDEYMQYAVVESFHSIYHILTSILEKEGRL(+)
MLLTLCHLEVSCRGGLLSLV*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						responsive to drought stress

Functional Information
Coding potential	Y
Potential coding position	4245255-4256566(+) 4245193-4256544(-)
Potential amino acid sequence	MSVPCCHGLAEACYRWSAVRLVKWMHQENNYVGRGMHESPLDYIKYATFWIAILGAKFSFTYFL QIKPLVEPTRTIINFTGLQYAWHDFFSKNNHNALTILSLWAPVLSIYLLDIHVFYTVLSAIYGF LLGARDRLGEISTVEAVHRFFEKFPGAFMHRLHVEVPKRKQLLSSGQEIELNKFDASRFSPFWN EIVRNLREEDYINNFELELLLMPKNDVGVLPIVQWPVFLLASKVFLAKEIAEDCKDSQEELWLR ISKDEYMQYAVVESFHSIYHILTSILEKEGRLCKTLQDGTESATFKIYVFVISAYVGIKIIFSL LMSVPCCHGLAEACYRWSAVRLVKWMHQENNYVGRGMHESPLDYIKYATFWIAILGAKFSFTYF LQIKPLVEPTRTIINFTGLQYAWHDFFSKNNHNALTILSLWAPVLSIYLLDIHVFYTVLSAIYG FLLGARDRLGEISTVEAVHRFFEKFPGAFMHRLHVEVPKRKQLLSSGQEIELNKFDASRFSPFW NEIVRNLREEDYINNFELELLLMPKNDVGVLPIVQWPVFLLASKVFLAKEIAEDCKDSQEELWL RISKDEYMQYAVVESFHSIYHILTSILEKEGRLCKTLQDGTESATFKIYVFVISAYVGIKIIFS LLMSVPCCHGLAEACYRWSAVRLVKWMHQENNYVGRGMHESPLDYIKYATFWIAILGAKFSFTY FLQIKPLVEPTRTIINFTGLQYAWHDFFSKNNHNALTILSLWAPVLSIYLLDIHVFYTVLSAIY GFLLGARDRLGEISTVEAVHRFFEKFPGAFMHRLHVEVPKRKQLLSSGQEIELNKFDASRFSPF WNEIVRNLREEDYINNFELELLLMPKNDVGVLPIVQWPVFLLASKVFLAKEIAEDCKDSQEELW LRISKDEYMQYAVVESFHSIYHILTSILEKEGRLCKTLQDGTESATFKIYVFVISAYVGIKIIF SLLMSVPCCHGLAEACYRWSAVRLVKWMHQENNYVGRGMHESPLDYIKYATFWIAILGAKFSFT YFLQIKPLVEPTRTIINFTGLQYAWHDFFSKNNHNALTILSLWAPVLSIYLLDIHVFYTVLSAI YGFLLGARDRLGEISTVEAVHRFFEKFPGAFMHRLHVEVPKRKQLLSSGQEIELNKFDASRFSP FWNEIVRNLREEDYINNFELELLLMPKNDVGVLPIVQWPVFLLASKVFLAKEIAEDCKDSQEEL WLRISKDEYMQYAVVESFHSIYHILTSILEKEGRL(+) MLLTLCHLEVSCRGGLLSLV*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	responsive to drought stress

			
						 Other Information
					
						References
						Han et al., 2020; Ma et al., 2021b;Zhang et al., 2019

circRNA

Detail information of Zm00001d027392_circ_g.4

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