Plant Circular RNA Database

Detail information of Zm00001d036961_circ_g.2

			
						 General Information
					
						CircRNA Name
						Zm00001d036961_circ_g.2
					
						ID in PlantcircBase
						zma_circ_008996
					
						Alias
						Zm06circ00039, zma_circ_0002131, GRMZM2G181151_C1
					
						Organism
						
							Zea mays						
					
						Position
						
							chr6: 107440283-107442611  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRI2, find_circ
					
						Parent gene
						
							Zm00001d036961						
					
						Parent gene annotation
						
							Putative ATPase, V1 complex, subunit B protein isoform 1; Putati
ve ATPase, V1 complex, subunit B protein isoform 2; Vacuolar ATP
 synthase subunit B isoform 1  
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Zm00001d036961_circ_g.1 						
					
						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
						Zm00001d036961_T004:5
Zm00001d036961_T003:5
Zm00001d036961_T006:5
Zm00001d036961_T002:4
Zm00001d036961_T005:5
Zm00001d036961_T001:5
Zm00001d036961_T008:5
Zm00001d036961_T007:5

General Information
CircRNA Name	Zm00001d036961_circ_g.2
ID in PlantcircBase	zma_circ_008996
Alias	Zm06circ00039, zma_circ_0002131, GRMZM2G181151_C1
Organism	Zea mays
Position	chr6: 107440283-107442611 JBrowse»
Reference genome	AGPv4.38
Type	ue-circRNA
Identification method	CIRI2, find_circ
Parent gene	Zm00001d036961
Parent gene annotation	Putative ATPase, V1 complex, subunit B protein isoform 1; Putati ve ATPase, V1 complex, subunit B protein isoform 2; Vacuolar ATP synthase subunit B isoform 1
Parent gene strand	+
Alternative splicing	Zm00001d036961_circ_g.1
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	Zm00001d036961_T004:5 Zm00001d036961_T003:5 Zm00001d036961_T006:5 Zm00001d036961_T002:4 Zm00001d036961_T005:5 Zm00001d036961_T001:5 Zm00001d036961_T008:5 Zm00001d036961_T007:5

			
						 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  
						
							ATGTATACTGATCTGGCAACAATATATGAGCGTGCTGGGCGTATTGAAGGAAGAACAGGGTCCA
TTACCCAAATTCCTATTCTGACAATGCCTAATGATGgttttgaaaactcctgtctcactcgata
tgcttgggcgcatttttaatggttctggaaaacctattgacaatggccccccgatattacctga
agcctact

									
								

					

						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: 736
Transcript exons: 107440283-107440394,107440553-107440758,107441144-107441
272,107441654-107441791,107442461-107442611
GTTTTGAAAACTCCTGTCTCACTCGATATGCTTGGGCGCATTTTTAATGGTTCTGGAAAACCTA
TTGACAATGGCCCCCCGATATTACCTGAAGCCTACTTGGATATCTCTGGAAGTTCTATTAATCC
CAGTGAGAGAACCTATCCAGAGGAGATGATCCAAACTGGGATATCCACCATTGATGTGATGAAC
TCCATTGCTCGTGGGCAAAAAATCCCCCTATTTTCTGCTGCTGGACTCCCTCACAATGAAATTG
CTGCTCAGATCTGTCGTCAGGCTGGCCTTGTGAAGACATTGGAGAAAGGAAAGCATGCAGAGGG
TGGTGAAGATGACAACTTTGCTATTGTGTTTGCTGCTATGGGAGTGAACATGGAAACAGCTCAA
TTCTTCAAACGTGATTTTGAAGAGAACGGTTCCATGGAACGGGTCACCCTTTTTCTGAATCTGG
CTAATGATCCCACCATTGAACGTATTATCACCCCTCGGATTGCTCTAACAACAGCAGAATATTT
GGCATATGAATGTGGGAAGCATGTACTTGTCATCTTGACAGATATGAGCTCTTATGCAGACGCA
CTTCGTGAGGTTTCTGCAGCCCGAGAAGAGGTGCCAGGTAGGCGTGGTTATCCTGGATATATGT
ATACTGATCTGGCAACAATATATGAGCGTGCTGGGCGTATTGAAGGAAGAACAGGGTCCATTAC
CCAAATTCCTATTCTGACAATGCCTAATGATG
						
					

						Genomic sequence
						
							GTTTTGAAAACTCCTGTCTCACTCGATATGCTTGGGCGCATTTTTAATGGTTCTGGAAAACCTA
TTGACAATGGCCCCCCGATATTACCTGAAGCCTACTTGGATATCTCTGGTAAGTAATTTCTGGT
TCAAGCACGCTGCTCTACAATGCTCATGGTGAAGTGCATGTTGTGGAGAGTAGTAGGTTTTAGA
AGTATTGATTGATTAGCGGCATTAAATCAATGAGTCCATCTTTAAAGTTTGTAATCATGTACTC
TGATTTTGTTGCAGGAAGTTCTATTAATCCCAGTGAGAGAACCTATCCAGAGGAGATGATCCAA
ACTGGGATATCCACCATTGATGTGATGAACTCCATTGCTCGTGGGCAAAAAATCCCCCTATTTT
CTGCTGCTGGACTCCCTCACAATGAAATTGCTGCTCAGATCTGTCGTCAGGCTGGCCTTGTGAA
GACATTGGAGAAAGGAAAGCATGCAGAGGTAGCTAATGTGTCCTAACTGCAACCCTACCCCCTC
CCCTACCTACAAACATATTTTTCAGAGTACAAACAGTTGAACACACATCTGCACTCTTAAAAAA
AATCAGAGATATCTCTTACATGAATGTTACTAGGCTTAACATTGCATGACTCACCTGAAATTCT
TACACACATTGTCTTAAGTTGGATATGTTGTGCCTGATACTTTTCATATGTTTCAACATCCTAT
TCTTTCAAGTAAGCTACAGTTTCTTTTGGTACACATGTACCTGTAATTATTTTTTATTTCCTGT
GAGGTCAACATTTATATGGAGGATTGTGTATTCATGTATGCTTTACATGTCTTAATAAGGCTTA
GTCACTGGTTCTGATTTTATTACCTGCAGGGTGGTGAAGATGACAACTTTGCTATTGTGTTTGC
TGCTATGGGAGTGAACATGGAAACAGCTCAATTCTTCAAACGTGATTTTGAAGAGAACGGTTCC
ATGGAACGGGTCACCCTTTTTCTGAATCTGGTACCTACAAGGACTTATGAATTTGTGATCAACA
TTCATTTACCATTTTATTTCTCCCAAGAGTGCCATAATCGGTTCTGCATTGTTTTAGATGCATA
TTGACCAAAAAAATCCCACAATCAGTGGCGGAGCTTGAACAATAACATAACGGGGCTATCAATG
AATTAGGGACCCCACTAATGATGCATGAATCAAATTGACCATGGAATCATGGATAACTGTTGTT
TATTTTTATTGAGAAAAAAAATCCTAGGGGTGGTCATGGCCCAGGTTGGCCTGCACTATCCTCT
GGCCCTGCATAACGATGAGCCAAATATATTCTACATGTGACATAATCAGTGTATAGCACAGCAT
ATTTTTAACACCTTGATCCTCTTACAGGCTAATGATCCCACCATTGAACGTATTATCACCCCTC
GGATTGCTCTAACAACAGCAGAATATTTGGCATATGAATGTGGGAAGCATGTACTTGTCATCTT
GACAGATATGAGCTCTTATGCAGACGCACTTCGTGAGGTATGGAGTTTTGATATTTTGTGTCAT
ATCTTGTATTTTCAGTCCATATCTTGTATTTAGGGCCTGTTTGGTTCCTTGCCCAGGCAAGGTT
GCCTTGCTTGGCCAGGCAGAAATCCAGACCATTTATTTCGAGTGCCTGGCAGATAGGATTGCAG
CCTGGCTGGCAGATTGCTTGCTCGGGCAAGGTTGCCAATGCTTTGTGCTGCAATTCTGTTGACC
TGATTCAATCATTTTTAAATACATTGATTCATGAATTATTTAGTGTTACTGCACATGGACATTT
ATTCTACATGTAACTGAGTTTACTACATGTTGTATTGGTGCCACAATGCTTGTATATAGTGACA
GTGACTTGTTATCAAAAGAATCTCATGATTTTGGTAATGATATGGTTGTAGAATTACAATTTTT
TATTGTCTTGACATCTTGTTAACACTGCCCTGAATGGCTGAATGGGTACTGGAATTATGTGTTG
AGATTTCTATAAGCTTCTGGGTGCTATTTTGTAGTTCTTCATTAAGAAACAACTCAGAAATGCT
TAATTATGTAGTATTCCATGTCCCATTTTAAGTATTTAAGATCAACCTTTGTATTTAGGTAATC
AAATGGTAAATTGATTTCATGTTTGATGTTTCTAATAATGCTACATGGGCATTGTGCTTTTTGT
AGGTTTCTGCAGCCCGAGAAGAGGTGCCAGGTAGGCGTGGTTATCCTGGATATATGTATACTGA
TCTGGCAACAATATATGAGCGTGCTGGGCGTATTGAAGGAAGAACAGGGTCCATTACCCAAATT
CCTATTCTGACAATGCCTAATGATG
						
					

			
		

Sequences
Splice junction sequence	ATGTATACTGATCTGGCAACAATATATGAGCGTGCTGGGCGTATTGAAGGAAGAACAGGGTCCA TTACCCAAATTCCTATTCTGACAATGCCTAATGATGgttttgaaaactcctgtctcactcgata tgcttgggcgcatttttaatggttctggaaaacctattgacaatggccccccgatattacctga agcctact
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: 736 Transcript exons: 107440283-107440394,107440553-107440758,107441144-107441 272,107441654-107441791,107442461-107442611 GTTTTGAAAACTCCTGTCTCACTCGATATGCTTGGGCGCATTTTTAATGGTTCTGGAAAACCTA TTGACAATGGCCCCCCGATATTACCTGAAGCCTACTTGGATATCTCTGGAAGTTCTATTAATCC CAGTGAGAGAACCTATCCAGAGGAGATGATCCAAACTGGGATATCCACCATTGATGTGATGAAC TCCATTGCTCGTGGGCAAAAAATCCCCCTATTTTCTGCTGCTGGACTCCCTCACAATGAAATTG CTGCTCAGATCTGTCGTCAGGCTGGCCTTGTGAAGACATTGGAGAAAGGAAAGCATGCAGAGGG TGGTGAAGATGACAACTTTGCTATTGTGTTTGCTGCTATGGGAGTGAACATGGAAACAGCTCAA TTCTTCAAACGTGATTTTGAAGAGAACGGTTCCATGGAACGGGTCACCCTTTTTCTGAATCTGG CTAATGATCCCACCATTGAACGTATTATCACCCCTCGGATTGCTCTAACAACAGCAGAATATTT GGCATATGAATGTGGGAAGCATGTACTTGTCATCTTGACAGATATGAGCTCTTATGCAGACGCA CTTCGTGAGGTTTCTGCAGCCCGAGAAGAGGTGCCAGGTAGGCGTGGTTATCCTGGATATATGT ATACTGATCTGGCAACAATATATGAGCGTGCTGGGCGTATTGAAGGAAGAACAGGGTCCATTAC CCAAATTCCTATTCTGACAATGCCTAATGATG
Genomic sequence	GTTTTGAAAACTCCTGTCTCACTCGATATGCTTGGGCGCATTTTTAATGGTTCTGGAAAACCTA TTGACAATGGCCCCCCGATATTACCTGAAGCCTACTTGGATATCTCTGGTAAGTAATTTCTGGT TCAAGCACGCTGCTCTACAATGCTCATGGTGAAGTGCATGTTGTGGAGAGTAGTAGGTTTTAGA AGTATTGATTGATTAGCGGCATTAAATCAATGAGTCCATCTTTAAAGTTTGTAATCATGTACTC TGATTTTGTTGCAGGAAGTTCTATTAATCCCAGTGAGAGAACCTATCCAGAGGAGATGATCCAA ACTGGGATATCCACCATTGATGTGATGAACTCCATTGCTCGTGGGCAAAAAATCCCCCTATTTT CTGCTGCTGGACTCCCTCACAATGAAATTGCTGCTCAGATCTGTCGTCAGGCTGGCCTTGTGAA GACATTGGAGAAAGGAAAGCATGCAGAGGTAGCTAATGTGTCCTAACTGCAACCCTACCCCCTC CCCTACCTACAAACATATTTTTCAGAGTACAAACAGTTGAACACACATCTGCACTCTTAAAAAA AATCAGAGATATCTCTTACATGAATGTTACTAGGCTTAACATTGCATGACTCACCTGAAATTCT TACACACATTGTCTTAAGTTGGATATGTTGTGCCTGATACTTTTCATATGTTTCAACATCCTAT TCTTTCAAGTAAGCTACAGTTTCTTTTGGTACACATGTACCTGTAATTATTTTTTATTTCCTGT GAGGTCAACATTTATATGGAGGATTGTGTATTCATGTATGCTTTACATGTCTTAATAAGGCTTA GTCACTGGTTCTGATTTTATTACCTGCAGGGTGGTGAAGATGACAACTTTGCTATTGTGTTTGC TGCTATGGGAGTGAACATGGAAACAGCTCAATTCTTCAAACGTGATTTTGAAGAGAACGGTTCC ATGGAACGGGTCACCCTTTTTCTGAATCTGGTACCTACAAGGACTTATGAATTTGTGATCAACA TTCATTTACCATTTTATTTCTCCCAAGAGTGCCATAATCGGTTCTGCATTGTTTTAGATGCATA TTGACCAAAAAAATCCCACAATCAGTGGCGGAGCTTGAACAATAACATAACGGGGCTATCAATG AATTAGGGACCCCACTAATGATGCATGAATCAAATTGACCATGGAATCATGGATAACTGTTGTT TATTTTTATTGAGAAAAAAAATCCTAGGGGTGGTCATGGCCCAGGTTGGCCTGCACTATCCTCT GGCCCTGCATAACGATGAGCCAAATATATTCTACATGTGACATAATCAGTGTATAGCACAGCAT ATTTTTAACACCTTGATCCTCTTACAGGCTAATGATCCCACCATTGAACGTATTATCACCCCTC GGATTGCTCTAACAACAGCAGAATATTTGGCATATGAATGTGGGAAGCATGTACTTGTCATCTT GACAGATATGAGCTCTTATGCAGACGCACTTCGTGAGGTATGGAGTTTTGATATTTTGTGTCAT ATCTTGTATTTTCAGTCCATATCTTGTATTTAGGGCCTGTTTGGTTCCTTGCCCAGGCAAGGTT GCCTTGCTTGGCCAGGCAGAAATCCAGACCATTTATTTCGAGTGCCTGGCAGATAGGATTGCAG CCTGGCTGGCAGATTGCTTGCTCGGGCAAGGTTGCCAATGCTTTGTGCTGCAATTCTGTTGACC TGATTCAATCATTTTTAAATACATTGATTCATGAATTATTTAGTGTTACTGCACATGGACATTT ATTCTACATGTAACTGAGTTTACTACATGTTGTATTGGTGCCACAATGCTTGTATATAGTGACA GTGACTTGTTATCAAAAGAATCTCATGATTTTGGTAATGATATGGTTGTAGAATTACAATTTTT TATTGTCTTGACATCTTGTTAACACTGCCCTGAATGGCTGAATGGGTACTGGAATTATGTGTTG AGATTTCTATAAGCTTCTGGGTGCTATTTTGTAGTTCTTCATTAAGAAACAACTCAGAAATGCT TAATTATGTAGTATTCCATGTCCCATTTTAAGTATTTAAGATCAACCTTTGTATTTAGGTAATC AAATGGTAAATTGATTTCATGTTTGATGTTTCTAATAATGCTACATGGGCATTGTGCTTTTTGT AGGTTTCTGCAGCCCGAGAAGAGGTGCCAGGTAGGCGTGGTTATCCTGGATATATGTATACTGA TCTGGCAACAATATATGAGCGTGCTGGGCGTATTGAAGGAAGAACAGGGTCCATTACCCAAATT CCTATTCTGACAATGCCTAATGATG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.22386329

Conservation Information
Conserved circRNAs	NA
PMCS	0.22386329

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							107440311-107440326(+)
107442607-107440326(+)
107440325-107441701(-)
						
						Potential amino acid sequence
						
							MLGRIFNGSGKPIDNGPPILPEAYLDISGSSINPSERTYPEEMIQTGISTIDVMNSIARGQKIP
LFSAAGLPHNEIAAQICRQAGLVKTLEKGKHAEGGEDDNFAIVFAAMGVNMETAQFFKRDFEEN
GSMERVTLFLNLANDPTIERIITPRIALTTAEYLAYECGKHVLVILTDMSSYADALREVSAARE
EVPGRRGYPGYMYTDLATIYERAGRIEGRTGSITQIPILTMPNDGFENSCLTRYAWAHF*(+)
MMVLKTPVSLDMLGRIFNGSGKPIDNGPPILPEAYLDISGSSINPSERTYPEEMIQTGISTIDV
MNSIARGQKIPLFSAAGLPHNEIAAQICRQAGLVKTLEKGKHAEGGEDDNFAIVFAAMGVNMET
AQFFKRDFEENGSMERVTLFLNLANDPTIERIITPRIALTTAEYLAYECGKHVLVILTDMSSYA
DALREVSAAREEVPGRRGYPGYMYTDLATIYERAGRIEGRTGSITQIPILTMPNDGFENSCLTR
YAWAHF*(+)
MRPSISSETGVFKTIIRHCQNRNLGNGPCSSFNTPSTLIYCCQISIHISRITTPTWHLFSGCRN
LTKCVCIRAHICQDDKYMLPTFICQIFCCC*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						responsive to drought stress

Functional Information
Coding potential	Y
Potential coding position	107440311-107440326(+) 107442607-107440326(+) 107440325-107441701(-)
Potential amino acid sequence	MLGRIFNGSGKPIDNGPPILPEAYLDISGSSINPSERTYPEEMIQTGISTIDVMNSIARGQKIP LFSAAGLPHNEIAAQICRQAGLVKTLEKGKHAEGGEDDNFAIVFAAMGVNMETAQFFKRDFEEN GSMERVTLFLNLANDPTIERIITPRIALTTAEYLAYECGKHVLVILTDMSSYADALREVSAARE EVPGRRGYPGYMYTDLATIYERAGRIEGRTGSITQIPILTMPNDGFENSCLTRYAWAHF(+) MMVLKTPVSLDMLGRIFNGSGKPIDNGPPILPEAYLDISGSSINPSERTYPEEMIQTGISTIDV MNSIARGQKIPLFSAAGLPHNEIAAQICRQAGLVKTLEKGKHAEGGEDDNFAIVFAAMGVNMET AQFFKRDFEENGSMERVTLFLNLANDPTIERIITPRIALTTAEYLAYECGKHVLVILTDMSSYA DALREVSAAREEVPGRRGYPGYMYTDLATIYERAGRIEGRTGSITQIPILTMPNDGFENSCLTR YAWAHF(+) MRPSISSETGVFKTIIRHCQNRNLGNGPCSSFNTPSTLIYCCQISIHISRITTPTWHLFSGCRN LTKCVCIRAHICQDDKYMLPTFICQIFCCC*(-)
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 Zm00001d036961_circ_g.2

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