Plant Circular RNA Database

Detail information of Zm00001d027392_circ_g.5

			
						 General Information
					
						CircRNA Name
						Zm00001d027392_circ_g.5
					
						ID in PlantcircBase
						zma_circ_006358
					
						Alias
						Zm01circ00011, zma_circ_0000026
					
						Organism
						
							Zea mays						
					
						Position
						
							chr1: 4245157-4263477  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							ue-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.4 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_T030:16
Zm00001d027392_T006:16
Zm00001d027392_T012:16
Zm00001d027392_T069:8
Zm00001d027392_T002:16
Zm00001d027392_T011:14
Zm00001d027392_T023:16
Zm00001d027392_T003:16
Zm00001d027392_T036:16
Zm00001d027392_T065:16
Zm00001d027392_T064:16
Zm00001d027392_T029:16
Zm00001d027392_T070:9
Zm00001d027392_T038:16
Zm00001d027392_T056:16
Zm00001d027392_T004:16
Zm00001d027392_T049:17
Zm00001d027392_T051:16
Zm00001d027392_T015:16
Zm00001d027392_T055:16
Zm00001d027392_T046:16
Zm00001d027392_T054:16
Zm00001d027392_T007:16
Zm00001d027392_T034:16
Zm00001d027392_T016:16
Zm00001d027392_T052:16
Zm00001d027392_T025:16
Zm00001d027392_T033:16
Zm00001d027392_T060:16
Zm00001d027392_T020:16
Zm00001d027392_T068:8
Zm00001d027392_T019:16
Zm00001d027392_T050:16
Zm00001d027392_T042:16
Zm00001d027392_T071:4
Zm00001d027392_T067:11
Zm00001d027392_T059:16
Zm00001d027392_T062:16
Zm00001d027392_T027:15
Zm00001d027392_T045:16
Zm00001d027392_T041:16

General Information
CircRNA Name	Zm00001d027392_circ_g.5
ID in PlantcircBase	zma_circ_006358
Alias	Zm01circ00011, zma_circ_0000026
Organism	Zea mays
Position	chr1: 4245157-4263477 JBrowse»
Reference genome	AGPv4.38
Type	ue-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.4 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_T030:16 Zm00001d027392_T006:16 Zm00001d027392_T012:16 Zm00001d027392_T069:8 Zm00001d027392_T002:16 Zm00001d027392_T011:14 Zm00001d027392_T023:16 Zm00001d027392_T003:16 Zm00001d027392_T036:16 Zm00001d027392_T065:16 Zm00001d027392_T064:16 Zm00001d027392_T029:16 Zm00001d027392_T070:9 Zm00001d027392_T038:16 Zm00001d027392_T056:16 Zm00001d027392_T004:16 Zm00001d027392_T049:17 Zm00001d027392_T051:16 Zm00001d027392_T015:16 Zm00001d027392_T055:16 Zm00001d027392_T046:16 Zm00001d027392_T054:16 Zm00001d027392_T007:16 Zm00001d027392_T034:16 Zm00001d027392_T016:16 Zm00001d027392_T052:16 Zm00001d027392_T025:16 Zm00001d027392_T033:16 Zm00001d027392_T060:16 Zm00001d027392_T020:16 Zm00001d027392_T068:8 Zm00001d027392_T019:16 Zm00001d027392_T050:16 Zm00001d027392_T042:16 Zm00001d027392_T071:4 Zm00001d027392_T067:11 Zm00001d027392_T059:16 Zm00001d027392_T062:16 Zm00001d027392_T027:15 Zm00001d027392_T045:16 Zm00001d027392_T041:16

			
						 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  
						
							CCATATTACTCTGAGATTGTTCTCTACAGCATGGCTGAACTTCAGAAGAAAAACGAAGACGGTA
TAACTACACTGTTTTATCTCCAGAAGATTTACCCAGcaagacacttcaagatggcacagagtca
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: 1547
Transcript exons: 4245157-4245334,4245430-4245482,4245565-4245625,4245702-
4245783,4245975-4246024,4246249-4246335,4252855-4252940,
4253018-4253042,4256036-4256130,4256215-4256299,4256409-
4256569,4262138-4262258,4262652-4262752,4262846-4262936,
4263046-4263206,4263368-4263477
CAAGACACTTCAAGATGGCACAGAGTCAGCAACATTCAAGATATATGTTTTTGTAATCAGTGCA
TATGTGGGCATTAAGATAATTTTCAGCCTACTTATGAGTGTCCCTTGTTGCCATGGTTTGGCTG
AGGCTTGCTATCGCTGGTCTGCTGTACGCCTTGTTAAGTGGATGCATCAGGAGAATAATTATGT
TGGAAGAGGCATGCATGAGAGTCCCCTTGACTATATCAAATACGCCACTTTCTGGATTGCAATT
CTTGGTGCAAAATTTTCATTCACCTATTTTCTTCAGATAAAACCTCTTGTAGAACCAACAAGAA
CTATAATCAATTTCACTGGCCTGCAGTATGCTTGGCATGATTTTTTCTCGAAGAATAATCATAA
TGCTCTTACAATCCTTTCTTTATGGGCTCCAGTGCTGTCAATTTACCTTTTGGACATTCATGTA
TTCTACACTGTATTGTCTGCTATTTATGGATTTCTCCTTGGTGCACGTGATCGCCTGGGAGAGA
TTAGTACTGTCGAGGCTGTTCACAGATTCTTTGAGAAGTTTCCTGGAGCATTCATGCATAGACT
TCATGTTGAGGTTCCCAAAAGGAAGCAACTGCTATCTTCTGGTCAGGAAATAGAGTTAAACAAG
TTTGACGCATCTAGATTCTCCCCCTTCTGGAATGAAATAGTGAGGAATTTAAGGGAAGAGGATT
ATATTAATAATTTTGAACTAGAATTGCTTTTGATGCCCAAGAATGACGTTGGAGTTCTACCGAT
TGTGCAATGGCCAGTTTTCTTGCTTGCTAGCAAGGTTTTCTTGGCCAAAGAGATTGCAGAGGAC
TGCAAAGACTCACAAGAAGAACTTTGGTTAAGGATATCGAAGGATGAATACATGCAATATGCTG
TTGTAGAGTCCTTCCATAGCATTTATCATATTCTGACGTCTATACTAGAGAAAGAAGGCCGCCT
CTGGGTGGAAAGAATTTATGGTGGTATCCGAGACAGCATTTCGAAGCGGACCATCCAAAGTGAT
CTTCATTTCAAAAAACTGCTTAATGTTATTGCCAAGCTTGTTGCTGTATTGGGAATACTGCGAG
GTACGACGGAGTCCAGTGATTTGAAAAAAGGTTTGGTTAATGCTATTCAAGACCTATATGATGT
TGTTCATCATGAAGCGTTTTCGGTTGATATGAGTGGCCACATTGAAGACTGGGATCAAATTAAT
TTAGCAAGGGCTGAAGGTCGCCTCTTCAATAAACTCAAGTGGCCAAATGATCCCAAATTGAAAG
ACTTGATCAAGAGATTGTATTCACTTCTGACAATTAAAGAATCTGCTGCAACTGTCCCTAAAAA
TTTAGAAGCCAGGCGAAGACTTCAGTTCTTTACGAACTCACTGTTCATGGAAATGCCTGTTGCA
CGGCCTGTTTCGGAAATGGTCTCCTTTAGTGTGTTTACTCCATATTACTCTGAGATTGTTCTCT
ACAGCATGGCTGAACTTCAGAAGAAAAACGAAGACGGTATAACTACACTGTTTTATCTCCAGAA
GATTTACCCAG
						
					

						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	CCATATTACTCTGAGATTGTTCTCTACAGCATGGCTGAACTTCAGAAGAAAAACGAAGACGGTA TAACTACACTGTTTTATCTCCAGAAGATTTACCCAGcaagacacttcaagatggcacagagtca 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: 1547 Transcript exons: 4245157-4245334,4245430-4245482,4245565-4245625,4245702- 4245783,4245975-4246024,4246249-4246335,4252855-4252940, 4253018-4253042,4256036-4256130,4256215-4256299,4256409- 4256569,4262138-4262258,4262652-4262752,4262846-4262936, 4263046-4263206,4263368-4263477 CAAGACACTTCAAGATGGCACAGAGTCAGCAACATTCAAGATATATGTTTTTGTAATCAGTGCA TATGTGGGCATTAAGATAATTTTCAGCCTACTTATGAGTGTCCCTTGTTGCCATGGTTTGGCTG AGGCTTGCTATCGCTGGTCTGCTGTACGCCTTGTTAAGTGGATGCATCAGGAGAATAATTATGT TGGAAGAGGCATGCATGAGAGTCCCCTTGACTATATCAAATACGCCACTTTCTGGATTGCAATT CTTGGTGCAAAATTTTCATTCACCTATTTTCTTCAGATAAAACCTCTTGTAGAACCAACAAGAA CTATAATCAATTTCACTGGCCTGCAGTATGCTTGGCATGATTTTTTCTCGAAGAATAATCATAA TGCTCTTACAATCCTTTCTTTATGGGCTCCAGTGCTGTCAATTTACCTTTTGGACATTCATGTA TTCTACACTGTATTGTCTGCTATTTATGGATTTCTCCTTGGTGCACGTGATCGCCTGGGAGAGA TTAGTACTGTCGAGGCTGTTCACAGATTCTTTGAGAAGTTTCCTGGAGCATTCATGCATAGACT TCATGTTGAGGTTCCCAAAAGGAAGCAACTGCTATCTTCTGGTCAGGAAATAGAGTTAAACAAG TTTGACGCATCTAGATTCTCCCCCTTCTGGAATGAAATAGTGAGGAATTTAAGGGAAGAGGATT ATATTAATAATTTTGAACTAGAATTGCTTTTGATGCCCAAGAATGACGTTGGAGTTCTACCGAT TGTGCAATGGCCAGTTTTCTTGCTTGCTAGCAAGGTTTTCTTGGCCAAAGAGATTGCAGAGGAC TGCAAAGACTCACAAGAAGAACTTTGGTTAAGGATATCGAAGGATGAATACATGCAATATGCTG TTGTAGAGTCCTTCCATAGCATTTATCATATTCTGACGTCTATACTAGAGAAAGAAGGCCGCCT CTGGGTGGAAAGAATTTATGGTGGTATCCGAGACAGCATTTCGAAGCGGACCATCCAAAGTGAT CTTCATTTCAAAAAACTGCTTAATGTTATTGCCAAGCTTGTTGCTGTATTGGGAATACTGCGAG GTACGACGGAGTCCAGTGATTTGAAAAAAGGTTTGGTTAATGCTATTCAAGACCTATATGATGT TGTTCATCATGAAGCGTTTTCGGTTGATATGAGTGGCCACATTGAAGACTGGGATCAAATTAAT TTAGCAAGGGCTGAAGGTCGCCTCTTCAATAAACTCAAGTGGCCAAATGATCCCAAATTGAAAG ACTTGATCAAGAGATTGTATTCACTTCTGACAATTAAAGAATCTGCTGCAACTGTCCCTAAAAA TTTAGAAGCCAGGCGAAGACTTCAGTTCTTTACGAACTCACTGTTCATGGAAATGCCTGTTGCA CGGCCTGTTTCGGAAATGGTCTCCTTTAGTGTGTTTACTCCATATTACTCTGAGATTGTTCTCT ACAGCATGGCTGAACTTCAGAAGAAAAACGAAGACGGTATAACTACACTGTTTTATCTCCAGAA GATTTACCCAG
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
						0.049589508

Conservation Information
Conserved circRNAs	NA
PMCS	0.049589508

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							4245255-4245209(+)
4245193-4263153(-)
						
						Potential amino acid sequence
						
							MSVPCCHGLAEACYRWSAVRLVKWMHQENNYVGRGMHESPLDYIKYATFWIAILGAKFSFTYFL
QIKPLVEPTRTIINFTGLQYAWHDFFSKNNHNALTILSLWAPVLSIYLLDIHVFYTVLSAIYGF
LLGARDRLGEISTVEAVHRFFEKFPGAFMHRLHVEVPKRKQLLSSGQEIELNKFDASRFSPFWN
EIVRNLREEDYINNFELELLLMPKNDVGVLPIVQWPVFLLASKVFLAKEIAEDCKDSQEELWLR
ISKDEYMQYAVVESFHSIYHILTSILEKEGRLWVERIYGGIRDSISKRTIQSDLHFKKLLNVIA
KLVAVLGILRGTTESSDLKKGLVNAIQDLYDVVHHEAFSVDMSGHIEDWDQINLARAEGRLFNK
LKWPNDPKLKDLIKRLYSLLTIKESAATVPKNLEARRRLQFFTNSLFMEMPVARPVSEMVSFSV
FTPYYSEIVLYSMAELQKKNEDGITTLFYLQKIYPARHFKMAQSQQHSRYMFL*(+)
MLLTLCHLEVSCWVNLLEIKQCSYTVFVFLLKFSHAVENNLRVIWSKHTKGDHFRNRPCNRHFH
EQ*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	4245255-4245209(+) 4245193-4263153(-)
Potential amino acid sequence	MSVPCCHGLAEACYRWSAVRLVKWMHQENNYVGRGMHESPLDYIKYATFWIAILGAKFSFTYFL QIKPLVEPTRTIINFTGLQYAWHDFFSKNNHNALTILSLWAPVLSIYLLDIHVFYTVLSAIYGF LLGARDRLGEISTVEAVHRFFEKFPGAFMHRLHVEVPKRKQLLSSGQEIELNKFDASRFSPFWN EIVRNLREEDYINNFELELLLMPKNDVGVLPIVQWPVFLLASKVFLAKEIAEDCKDSQEELWLR ISKDEYMQYAVVESFHSIYHILTSILEKEGRLWVERIYGGIRDSISKRTIQSDLHFKKLLNVIA KLVAVLGILRGTTESSDLKKGLVNAIQDLYDVVHHEAFSVDMSGHIEDWDQINLARAEGRLFNK LKWPNDPKLKDLIKRLYSLLTIKESAATVPKNLEARRRLQFFTNSLFMEMPVARPVSEMVSFSV FTPYYSEIVLYSMAELQKKNEDGITTLFYLQKIYPARHFKMAQSQQHSRYMFL(+) MLLTLCHLEVSCWVNLLEIKQCSYTVFVFLLKFSHAVENNLRVIWSKHTKGDHFRNRPCNRHFH EQ(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

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

circRNA

Detail information of Zm00001d027392_circ_g.5

Address

Any questions?

Supported by