Plant Circular RNA Database

Detail information of Zm00001d032353_circ_g.6

			
						 General Information
					
						CircRNA Name
						Zm00001d032353_circ_g.6
					
						ID in PlantcircBase
						zma_circ_006794
					
						Alias
						Zm01circ00142, zma_circ_0000418, GRMZM2G032351_C1
					
						Organism
						
							Zea mays						
					
						Position
						
							chr1: 223569764-223572354  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRI2, find_circ
					
						Parent gene
						
							Zm00001d032353						
					
						Parent gene annotation
						
							 blue-light receptor phototropin 2
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Zm00001d032353_circ_g.4 Zm00001d032353_circ_g.5 Zm00001d032353_circ_g.7 Zm00001d032353_circ_g.8 Zm00001d032353_circ_g.9 						
					
						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  
						
							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
						Zm00001d032353_T002:6
Zm00001d032353_T001:6

General Information
CircRNA Name	Zm00001d032353_circ_g.6
ID in PlantcircBase	zma_circ_006794
Alias	Zm01circ00142, zma_circ_0000418, GRMZM2G032351_C1
Organism	Zea mays
Position	chr1: 223569764-223572354 JBrowse»
Reference genome	AGPv4.38
Type	ue-circRNA
Identification method	CIRI2, find_circ
Parent gene	Zm00001d032353
Parent gene annotation	blue-light receptor phototropin 2
Parent gene strand	-
Alternative splicing	Zm00001d032353_circ_g.4 Zm00001d032353_circ_g.5 Zm00001d032353_circ_g.7 Zm00001d032353_circ_g.8 Zm00001d032353_circ_g.9
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	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	Zm00001d032353_T002:6 Zm00001d032353_T001:6

			
						 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  
						
							GGTGTAGTTGATTAGCTGGACAGTGATTTCTTTCTGTTCCCGGATAGCTTCCCGGATCTTATCA
ACTGTGGACATGTCGGTCTCTGGCCCTTGAAGAAATctgccagtgtcaccataacccaaaggtt
ttataggcttgaagtgcttcaagccaatcttcacaccagattttataatctaaagtacaaatac
aaagcaaa

									
								

					

						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: 494
Transcript exons: 223569764-223569840,223570484-223570573,223571213-223571
277,223571864-223571968,223572056-223572105,223572248-22
3572354
CTGCCAGTGTCACCATAACCCAAAGGTTTTATAGGCTTGAAGTGCTTCAAGCCAATCTTCACAC
CAGATTTTATAATCTTTTCCATCGCAATCCAAGAAGAGTTGTAACGTTTATGAGGCTTTGGGGA
AACATATCGTGAGTAAATGTCCCATAGATCCTCTGGTCTCTTACCAGGTTGGGATCAGGAAGCT
CTCTGACTGCTTCATCCACATTCTCTGCCGTAGCTTTGACCAATTTAGCACTTTGTAGTTCAGT
GTTCTCAGAGAGACGATTCCTAAGGGGTTCAACATGGTCGCTTCCATCCAATTGAACTCCAATG
AAGTATTGAAGCTCTCCTTTCTGGTCTCGCATTGGCTGTAGGTGGAACAAGTTCCAAAACTTCT
TCCCGCTCTTGGTGTAGTTGATTAGCTGGACAGTGATTTCTTTCTGTTCCCGGATAGCTTCCCG
GATCTTATCAACTGTGGACATGTCGGTCTCTGGCCCTTGAAGAAAT
						
					

						Genomic sequence
						
							CTGCCAGTGTCACCATAACCCAAAGGTTTTATAGGCTTGAAGTGCTTCAAGCCAATCTTCACAC
CAGATTTTATAATCTAAAGTACAAATACAAAGCAAATTAAAAAAACTGCATGCCAACATTTCAA
ATCAAAGCATACTTAAAGTATGACCACATTATGGATTTTATAAATCAATCTGAAATCAAAAGGA
AAATAACAACTTGAACATTTTGCACATAGAATATTTTGAGTGTTATCTAGATATATGAAGAATC
ACAAAAAGTTAATGCAAGTTCATAAATTGGCATAAAACACTATAAGCAAAAGCAAAGACCATTG
CACATATCTCTAAAGACATACTTCATTCAAATTATAAGATATTTTAGCCTTTTTAGATGTATAG
TTTTTTTCTATACAATTAGATATACACTATGTCTAGATACATAATAAAATTAATGTACCTTAAA
AAACCAAAAGATCTTATAATTTGGAACTGAGAGAGTTGTAAACATAATATTACGGCTTAGTAGA
GGTAGAAATTAGAATTTGAGAAAGGATAAACTAAACTCTTGTAAACATATATGGCAAATGCATT
GTCATCCTGCTTTTGCCTTTCTTCAATGCACGAAATAGTAAATTACTTTGTGTCCAACTCTTTG
TCTAGTATTTGTAGTAATAAGCTTAACTAACTATTTTTTGTGCTACTTACATAATCTTTTAGGA
GACATTCATAACATACCTTTTCCATCGCAATCCAAGAAGAGTTGTAACGTTTATGAGGCTTTGG
GGAAACATATCGTGAGTAAATGTCCCATAGATCCTCTGGTCTCTGCAAATATACATATTAGCTA
CAGTAAAATATATGACAAAGAATTGGCTAAACAAACTACTCTTAAATATTTATGTTAGTTCAAA
GTATTGACATTGCAGTTGTGGTTTCTGTTTCATAATGCAAAGCTCATATTATGCGGCAAAACAT
GAGAATAGTTTATTGATCCTTTTCTTCTGAGGTTGCCCCATATCATAGTAGATGTTATCCATTT
GTTATAAAAACATACATTTTCATATAGAGCATTAAGTTGATCTCCACAATAGAAATTTACCAAA
TATTTATAATACTCCCTCTGTCCCAATTTATAATTTGTTTGACTTTTTTGCACCAAGTTTGACC
GGCTCGTCTTATTAAAAAATTTGAACATTATATACTAAACAATATCACAGTAAAAACTAACAAT
AATTATGAAATATTTTTAAATAAGTCGAGCCGTTCAAACTTGAGGTAAAAAAAGTCAAGTGAAT
TATAAATTGGAACGTAGAGAGTAGCATTTATAGAAGTCTAAGAATAGTTAGTGATCTCTTGTTA
GAATATTCATTTTTCTTGAACATGGAAGAGGAATATGTATATTTGAATTAAGAATAATAATTAG
CGAATGCTTTTGGAAAATAGTGAAACAAAAATTAGATGTACCTTACCAGGTTGGGATCAGGAAG
CTCTCTGACTGCTTCATCCACATTCTCTGCCGTAGCTTTGACCTATTTGAATTTTATCACATGA
ATAGTTAGTGTACTTCAAATTTGAAAGGAAAAATACATTCACATAATGTTATCGTCCTATGTAT
CAATTATTCACTCCCTTTCAAATTGTTAGTCATTTTTAGTTTTGTCCTAAGTTAAACTTGTCTA
ACTTTGACCAAGTTTATAAGGAATATATTAACACCTATAATATAAAACAAATGTATTATCAAAA
TATAAATCATTGTCCATTTAATGAATCTAGTTTTATATTAATGTTGTTTGTAGATCTTTCTATA
AATTTGGTCAAAACAAGAGAATTTTGACTTATAAAAAACTAAAACCACTAACAATTGGAGTGGA
GGGAGTAGCTACATATATTTTGTCAAGACATACCCAGGTTGCTTGTTAATTTCCATGTCCATAG
GTTTCTTTTATGAGTGAAGGCTGGAAGTTAATCCATCACTATGGACCATACCAACAAGAATAGA
AACCAAATAACCGAGTCCTCATTTTGTTTTACATTTTAAAGTTGGCTTATTGTGCACCTATTAT
AGATCTAGTTTAAACCATCAAAATGAAAATTACTGAGAATAGATTGAGCTACCAATTTAGCACT
TTGTAGTTCAGTGTTCTCAGAGAGACGATTCCTAAGGGGTTCAACATGGTCGCTTCCATCCAAT
TGAACTCCAATGAAGTATTGAAGCTCTCCCTACATACCCAAATAATAAAATGAGTGTGCACGGT
ACCACATGAACAAGTGTGCAACAAGTTGACAAGAGATATAGCCAGTGAGTACTTTCTGGTCTCG
CATTGGCTGTAGGTGGAACAAGTTCCAAAACTTCTTCCCTGGTCAATGAACAACAATCGTAGAA
AAATATCAGTATATATAGCACCCACATCAATCATACATATATTGACTAAACTCTATGGTAGGAA
AAGGTCAATTGCTCATGCTTTCTAGTTTTTCCGGTTAAAATGCAAAATTTACCGCTCTTGGTGT
AGTTGATTAGCTGGACAGTGATTTCTTTCTGTTCCCGGATAGCTTCCCGGATCTTATCAACTGT
GGACATGTCGGTCTCTGGCCCTTGAAGAAAT
						
					

			
		

Sequences
Splice junction sequence	GGTGTAGTTGATTAGCTGGACAGTGATTTCTTTCTGTTCCCGGATAGCTTCCCGGATCTTATCA ACTGTGGACATGTCGGTCTCTGGCCCTTGAAGAAATctgccagtgtcaccataacccaaaggtt ttataggcttgaagtgcttcaagccaatcttcacaccagattttataatctaaagtacaaatac aaagcaaa
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: 494 Transcript exons: 223569764-223569840,223570484-223570573,223571213-223571 277,223571864-223571968,223572056-223572105,223572248-22 3572354 CTGCCAGTGTCACCATAACCCAAAGGTTTTATAGGCTTGAAGTGCTTCAAGCCAATCTTCACAC CAGATTTTATAATCTTTTCCATCGCAATCCAAGAAGAGTTGTAACGTTTATGAGGCTTTGGGGA AACATATCGTGAGTAAATGTCCCATAGATCCTCTGGTCTCTTACCAGGTTGGGATCAGGAAGCT CTCTGACTGCTTCATCCACATTCTCTGCCGTAGCTTTGACCAATTTAGCACTTTGTAGTTCAGT GTTCTCAGAGAGACGATTCCTAAGGGGTTCAACATGGTCGCTTCCATCCAATTGAACTCCAATG AAGTATTGAAGCTCTCCTTTCTGGTCTCGCATTGGCTGTAGGTGGAACAAGTTCCAAAACTTCT TCCCGCTCTTGGTGTAGTTGATTAGCTGGACAGTGATTTCTTTCTGTTCCCGGATAGCTTCCCG GATCTTATCAACTGTGGACATGTCGGTCTCTGGCCCTTGAAGAAAT
Genomic sequence	CTGCCAGTGTCACCATAACCCAAAGGTTTTATAGGCTTGAAGTGCTTCAAGCCAATCTTCACAC CAGATTTTATAATCTAAAGTACAAATACAAAGCAAATTAAAAAAACTGCATGCCAACATTTCAA ATCAAAGCATACTTAAAGTATGACCACATTATGGATTTTATAAATCAATCTGAAATCAAAAGGA AAATAACAACTTGAACATTTTGCACATAGAATATTTTGAGTGTTATCTAGATATATGAAGAATC ACAAAAAGTTAATGCAAGTTCATAAATTGGCATAAAACACTATAAGCAAAAGCAAAGACCATTG CACATATCTCTAAAGACATACTTCATTCAAATTATAAGATATTTTAGCCTTTTTAGATGTATAG TTTTTTTCTATACAATTAGATATACACTATGTCTAGATACATAATAAAATTAATGTACCTTAAA AAACCAAAAGATCTTATAATTTGGAACTGAGAGAGTTGTAAACATAATATTACGGCTTAGTAGA GGTAGAAATTAGAATTTGAGAAAGGATAAACTAAACTCTTGTAAACATATATGGCAAATGCATT GTCATCCTGCTTTTGCCTTTCTTCAATGCACGAAATAGTAAATTACTTTGTGTCCAACTCTTTG TCTAGTATTTGTAGTAATAAGCTTAACTAACTATTTTTTGTGCTACTTACATAATCTTTTAGGA GACATTCATAACATACCTTTTCCATCGCAATCCAAGAAGAGTTGTAACGTTTATGAGGCTTTGG GGAAACATATCGTGAGTAAATGTCCCATAGATCCTCTGGTCTCTGCAAATATACATATTAGCTA CAGTAAAATATATGACAAAGAATTGGCTAAACAAACTACTCTTAAATATTTATGTTAGTTCAAA GTATTGACATTGCAGTTGTGGTTTCTGTTTCATAATGCAAAGCTCATATTATGCGGCAAAACAT GAGAATAGTTTATTGATCCTTTTCTTCTGAGGTTGCCCCATATCATAGTAGATGTTATCCATTT GTTATAAAAACATACATTTTCATATAGAGCATTAAGTTGATCTCCACAATAGAAATTTACCAAA TATTTATAATACTCCCTCTGTCCCAATTTATAATTTGTTTGACTTTTTTGCACCAAGTTTGACC GGCTCGTCTTATTAAAAAATTTGAACATTATATACTAAACAATATCACAGTAAAAACTAACAAT AATTATGAAATATTTTTAAATAAGTCGAGCCGTTCAAACTTGAGGTAAAAAAAGTCAAGTGAAT TATAAATTGGAACGTAGAGAGTAGCATTTATAGAAGTCTAAGAATAGTTAGTGATCTCTTGTTA GAATATTCATTTTTCTTGAACATGGAAGAGGAATATGTATATTTGAATTAAGAATAATAATTAG CGAATGCTTTTGGAAAATAGTGAAACAAAAATTAGATGTACCTTACCAGGTTGGGATCAGGAAG CTCTCTGACTGCTTCATCCACATTCTCTGCCGTAGCTTTGACCTATTTGAATTTTATCACATGA ATAGTTAGTGTACTTCAAATTTGAAAGGAAAAATACATTCACATAATGTTATCGTCCTATGTAT CAATTATTCACTCCCTTTCAAATTGTTAGTCATTTTTAGTTTTGTCCTAAGTTAAACTTGTCTA ACTTTGACCAAGTTTATAAGGAATATATTAACACCTATAATATAAAACAAATGTATTATCAAAA TATAAATCATTGTCCATTTAATGAATCTAGTTTTATATTAATGTTGTTTGTAGATCTTTCTATA AATTTGGTCAAAACAAGAGAATTTTGACTTATAAAAAACTAAAACCACTAACAATTGGAGTGGA GGGAGTAGCTACATATATTTTGTCAAGACATACCCAGGTTGCTTGTTAATTTCCATGTCCATAG GTTTCTTTTATGAGTGAAGGCTGGAAGTTAATCCATCACTATGGACCATACCAACAAGAATAGA AACCAAATAACCGAGTCCTCATTTTGTTTTACATTTTAAAGTTGGCTTATTGTGCACCTATTAT AGATCTAGTTTAAACCATCAAAATGAAAATTACTGAGAATAGATTGAGCTACCAATTTAGCACT TTGTAGTTCAGTGTTCTCAGAGAGACGATTCCTAAGGGGTTCAACATGGTCGCTTCCATCCAAT TGAACTCCAATGAAGTATTGAAGCTCTCCCTACATACCCAAATAATAAAATGAGTGTGCACGGT ACCACATGAACAAGTGTGCAACAAGTTGACAAGAGATATAGCCAGTGAGTACTTTCTGGTCTCG CATTGGCTGTAGGTGGAACAAGTTCCAAAACTTCTTCCCTGGTCAATGAACAACAATCGTAGAA AAATATCAGTATATATAGCACCCACATCAATCATACATATATTGACTAAACTCTATGGTAGGAA AAGGTCAATTGCTCATGCTTTCTAGTTTTTCCGGTTAAAATGCAAAATTTACCGCTCTTGGTGT AGTTGATTAGCTGGACAGTGATTTCTTTCTGTTCCCGGATAGCTTCCCGGATCTTATCAACTGT GGACATGTCGGTCTCTGGCCCTTGAAGAAAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.063875921

Conservation Information
Conserved circRNAs	NA
PMCS	0.063875921

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							223570494-223569836(-)
223569781-223572268(-)
						
						Potential amino acid sequence
						
							MEKIIKSGVKIGLKHFKPIKPLGYGDTGRFLQGPETDMSTVDKIREAIREQKEITVQLINYTKS
GKKFWNLFHLQPMRDQKGELQYFIGVQLDGSDHVEPLRNRLSENTELQSAKLVKATAENVDEAV
RELPDPNLVRDQRIYGTFTHDMFPQSLINVTTLLGLRWKRL*(-)
MVTLADFFKGQRPTCPQLIRSGKLSGNRKKSLSS*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						responsive to drought stress

Functional Information
Coding potential	Y
Potential coding position	223570494-223569836(-) 223569781-223572268(-)
Potential amino acid sequence	MEKIIKSGVKIGLKHFKPIKPLGYGDTGRFLQGPETDMSTVDKIREAIREQKEITVQLINYTKS GKKFWNLFHLQPMRDQKGELQYFIGVQLDGSDHVEPLRNRLSENTELQSAKLVKATAENVDEAV RELPDPNLVRDQRIYGTFTHDMFPQSLINVTTLLGLRWKRL(-) MVTLADFFKGQRPTCPQLIRSGKLSGNRKKSLSS(-)
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 Zm00001d032353_circ_g.6

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