Plant Circular RNA Database

Detail information of Zm00001d035844_circ_g.2

			
						 General Information
					
						CircRNA Name
						Zm00001d035844_circ_g.2
					
						ID in PlantcircBase
						zma_circ_008921
					
						Alias
						Zm06circ00020, zma_circ_0002095, GRMZM2G017845_C1
					
						Organism
						
							Zea mays						
					
						Position
						
							chr6: 55325576-55326849  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRI2, find_circ
					
						Parent gene
						
							Zm00001d035844						
					
						Parent gene annotation
						
							 ubiquitin receptor1
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Zm00001d035844_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
						Zm00001d035844_T014:6
Zm00001d035844_T015:6
Zm00001d035844_T020:5
Zm00001d035844_T012:6
Zm00001d035844_T002:6
Zm00001d035844_T005:5
Zm00001d035844_T007:6
Zm00001d035844_T010:6
Zm00001d035844_T004:6
Zm00001d035844_T018:4
Zm00001d035844_T019:6
Zm00001d035844_T006:6
Zm00001d035844_T011:6
Zm00001d035844_T009:6
Zm00001d035844_T001:6
Zm00001d035844_T016:6
Zm00001d035844_T003:5

General Information
CircRNA Name	Zm00001d035844_circ_g.2
ID in PlantcircBase	zma_circ_008921
Alias	Zm06circ00020, zma_circ_0002095, GRMZM2G017845_C1
Organism	Zea mays
Position	chr6: 55325576-55326849 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	CIRI2, find_circ
Parent gene	Zm00001d035844
Parent gene annotation	ubiquitin receptor1
Parent gene strand	+
Alternative splicing	Zm00001d035844_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	Zm00001d035844_T014:6 Zm00001d035844_T015:6 Zm00001d035844_T020:5 Zm00001d035844_T012:6 Zm00001d035844_T002:6 Zm00001d035844_T005:5 Zm00001d035844_T007:6 Zm00001d035844_T010:6 Zm00001d035844_T004:6 Zm00001d035844_T018:4 Zm00001d035844_T019:6 Zm00001d035844_T006:6 Zm00001d035844_T011:6 Zm00001d035844_T009:6 Zm00001d035844_T001:6 Zm00001d035844_T016:6 Zm00001d035844_T003:5

			
						 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  
						
							GAATGGCTGGAAACAAAATTATGGGAATGATAACAGAGCCATATAGGCTGACACGGCGATGTGA
AGTGACTGCAATTCTTATTCTGTATGGTCTCCCAAGagcatgcgcaggatgtcacagagagatt
ggtcacgggcgttttctcagttgcatgggagctgtttggcatccggaatgttttcgttgccatg
catgtagt

									
								

					

						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: 714
Transcript exons: 55325576-55325696,55325761-55325844,55326026-55326145,55
326266-55326478,55326567-55326629,55326737-55326849
AGCATGCGCAGGATGTCACAGAGAGATTGGTCACGGGCGTTTTCTCAGTTGCATGGGAGCTGTT
TGGCATCCGGAATGTTTTCGTTGCCATGCATGTAGTCAACCTATATATGACTATGAGTTCTCCA
TGTCCGGGAATCATCCATACCATAAAACTTGCTACAAGGAGCAGTTTCACCCGAAATGTGATGT
CTGCAAGCAGTTCATTCCTACAAATATGAATGGCCTTATTGAATATAGGGCACATCCTTTCTGG
GTACAAAAATACTGTCCTTCACATGAAATGGATGGTACTCCGAGGTGCTGTAGTTGTGAAAGAA
TGGAGCCAAGGGAATCAAAATATGTATTACTGGATGATGGTCGTAAGCTCTGCCTGGAGTGCCT
TGATTCCGCAGTGATGGATACAAACGACTGCCAGCCTTTGTATCTTGAAATTCAGGAATTTTAC
GAAGGACTGAATATGAAAGTGGAACAGCAGGTTCCTCTGCTTCTGGTCGAGCGACAAGCTTTGA
ATGAAGCCATGGAAGGAGAGAAGGCTGGTCACCACCATCTTCCTGAAACAAGAGGACTATGCTT
ATCAGAAGAACAGACTGTTAGCACGATACTGAGACCAAGAATGGCTGGAAACAAAATTATGGGA
ATGATAACAGAGCCATATAGGCTGACACGGCGATGTGAAGTGACTGCAATTCTTATTCTGTATG
GTCTCCCAAG
						
					

						Genomic sequence
						
							AGCATGCGCAGGATGTCACAGAGAGATTGGTCACGGGCGTTTTCTCAGTTGCATGGGAGCTGTT
TGGCATCCGGAATGTTTTCGTTGCCATGCATGTAGTCAACCTATATATGACTATGAGGTAACTT
TTTTGTTTACTTTTTAGCAGTTTCTTTCAATGTACTGACCTTAAAGCCATGCTGCAGTTCTCCA
TGTCCGGGAATCATCCATACCATAAAACTTGCTACAAGGAGCAGTTTCACCCGAAATGTGATGT
CTGCAAGCAGTTCGTAAGGATCACTTTATTTACCCTGACCGATCTGTTTATGCTATAAGTTTTT
TCTGTTGAACATTTTACTTGCCTGTTTGTGCTAATAAAATCTATCTCCAATATCTTGGAGAATG
TGCTTTCTCTACATTTTTCATGATTGACATGTTTACTCTTGCTAATATCTGATTACTTCTTTTC
AGATTCCTACAAATATGAATGGCCTTATTGAATATAGGGCACATCCTTTCTGGGTACAAAAATA
CTGTCCTTCACATGAAATGGATGGTACTCCGAGGTGCTGTAGTTGTGAAAGAATGGAGGTAGGC
CAGTTAGCATGTTTTTCTTAATTTGGTCTTGTGGGCATATTTCATGGTTAGAAGAGAGCCTCTG
TGTGTGAAATTTGGATCATTTCATTCCAACATGGTTTGTTCACTTACCAGCCAAGGGAATCAAA
ATATGTATTACTGGATGATGGTCGTAAGCTCTGCCTGGAGTGCCTTGATTCCGCAGTGATGGAT
ACAAACGACTGCCAGCCTTTGTATCTTGAAATTCAGGAATTTTACGAAGGACTGAATATGAAAG
TGGAACAGCAGGTTCCTCTGCTTCTGGTCGAGCGACAAGCTTTGAATGAAGCCATGGAAGGAGA
GAAGGCTGTATGTTTACTATGCTCAAAACCCAAAATTTCTTTTTCTACCCCACTGTACTGTTAG
CTGTAGCTATTTTGTTTCTTTTGGATACCAGGGTCACCACCATCTTCCTGAAACAAGAGGACTA
TGCTTATCAGAAGAACAGACTGTTAGCACGGTGAGAGTTTTTCCAAACACCAATTGGATTATTC
TTTCCTTATTTAATTCTTGTTCTGTTCCAATTTTGTTCTTCTGCTGCATTCTGAATGAGACTGA
TGTTTTCAGATACTGAGACCAAGAATGGCTGGAAACAAAATTATGGGAATGATAACAGAGCCAT
ATAGGCTGACACGGCGATGTGAAGTGACTGCAATTCTTATTCTGTATGGTCTCCCAAG
						
					

			
		

Sequences
Splice junction sequence	GAATGGCTGGAAACAAAATTATGGGAATGATAACAGAGCCATATAGGCTGACACGGCGATGTGA AGTGACTGCAATTCTTATTCTGTATGGTCTCCCAAGagcatgcgcaggatgtcacagagagatt ggtcacgggcgttttctcagttgcatgggagctgtttggcatccggaatgttttcgttgccatg catgtagt
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: 714 Transcript exons: 55325576-55325696,55325761-55325844,55326026-55326145,55 326266-55326478,55326567-55326629,55326737-55326849 AGCATGCGCAGGATGTCACAGAGAGATTGGTCACGGGCGTTTTCTCAGTTGCATGGGAGCTGTT TGGCATCCGGAATGTTTTCGTTGCCATGCATGTAGTCAACCTATATATGACTATGAGTTCTCCA TGTCCGGGAATCATCCATACCATAAAACTTGCTACAAGGAGCAGTTTCACCCGAAATGTGATGT CTGCAAGCAGTTCATTCCTACAAATATGAATGGCCTTATTGAATATAGGGCACATCCTTTCTGG GTACAAAAATACTGTCCTTCACATGAAATGGATGGTACTCCGAGGTGCTGTAGTTGTGAAAGAA TGGAGCCAAGGGAATCAAAATATGTATTACTGGATGATGGTCGTAAGCTCTGCCTGGAGTGCCT TGATTCCGCAGTGATGGATACAAACGACTGCCAGCCTTTGTATCTTGAAATTCAGGAATTTTAC GAAGGACTGAATATGAAAGTGGAACAGCAGGTTCCTCTGCTTCTGGTCGAGCGACAAGCTTTGA ATGAAGCCATGGAAGGAGAGAAGGCTGGTCACCACCATCTTCCTGAAACAAGAGGACTATGCTT ATCAGAAGAACAGACTGTTAGCACGATACTGAGACCAAGAATGGCTGGAAACAAAATTATGGGA ATGATAACAGAGCCATATAGGCTGACACGGCGATGTGAAGTGACTGCAATTCTTATTCTGTATG GTCTCCCAAG
Genomic sequence	AGCATGCGCAGGATGTCACAGAGAGATTGGTCACGGGCGTTTTCTCAGTTGCATGGGAGCTGTT TGGCATCCGGAATGTTTTCGTTGCCATGCATGTAGTCAACCTATATATGACTATGAGGTAACTT TTTTGTTTACTTTTTAGCAGTTTCTTTCAATGTACTGACCTTAAAGCCATGCTGCAGTTCTCCA TGTCCGGGAATCATCCATACCATAAAACTTGCTACAAGGAGCAGTTTCACCCGAAATGTGATGT CTGCAAGCAGTTCGTAAGGATCACTTTATTTACCCTGACCGATCTGTTTATGCTATAAGTTTTT TCTGTTGAACATTTTACTTGCCTGTTTGTGCTAATAAAATCTATCTCCAATATCTTGGAGAATG TGCTTTCTCTACATTTTTCATGATTGACATGTTTACTCTTGCTAATATCTGATTACTTCTTTTC AGATTCCTACAAATATGAATGGCCTTATTGAATATAGGGCACATCCTTTCTGGGTACAAAAATA CTGTCCTTCACATGAAATGGATGGTACTCCGAGGTGCTGTAGTTGTGAAAGAATGGAGGTAGGC CAGTTAGCATGTTTTTCTTAATTTGGTCTTGTGGGCATATTTCATGGTTAGAAGAGAGCCTCTG TGTGTGAAATTTGGATCATTTCATTCCAACATGGTTTGTTCACTTACCAGCCAAGGGAATCAAA ATATGTATTACTGGATGATGGTCGTAAGCTCTGCCTGGAGTGCCTTGATTCCGCAGTGATGGAT ACAAACGACTGCCAGCCTTTGTATCTTGAAATTCAGGAATTTTACGAAGGACTGAATATGAAAG TGGAACAGCAGGTTCCTCTGCTTCTGGTCGAGCGACAAGCTTTGAATGAAGCCATGGAAGGAGA GAAGGCTGTATGTTTACTATGCTCAAAACCCAAAATTTCTTTTTCTACCCCACTGTACTGTTAG CTGTAGCTATTTTGTTTCTTTTGGATACCAGGGTCACCACCATCTTCCTGAAACAAGAGGACTA TGCTTATCAGAAGAACAGACTGTTAGCACGGTGAGAGTTTTTCCAAACACCAATTGGATTATTC TTTCCTTATTTAATTCTTGTTCTGTTCCAATTTTGTTCTTCTGCTGCATTCTGAATGAGACTGA TGTTTTCAGATACTGAGACCAAGAATGGCTGGAAACAAAATTATGGGAATGATAACAGAGCCAT ATAGGCTGACACGGCGATGTGAAGTGACTGCAATTCTTATTCTGTATGGTCTCCCAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.285188779

Conservation Information
Conserved circRNAs	NA
PMCS	0.285188779

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							55325629-55326846(+)
55326838-55326038(+)
55326069-55326608(-)
						
						Potential amino acid sequence
						
							MGAVWHPECFRCHACSQPIYDYEFSMSGNHPYHKTCYKEQFHPKCDVCKQFIPTNMNGLIEYRA
HPFWVQKYCPSHEMDGTPRCCSCERMEPRESKYVLLDDGRKLCLECLDSAVMDTNDCQPLYLEI
QEFYEGLNMKVEQQVPLLLVERQALNEAMEGEKAGHHHLPETRGLCLSEEQTVSTILRPRMAGN
KIMGMITEPYRLTRRCEVTAILILYGLPRACAGCHREIGHGRFLSCMGAVWHPECFRCHACSQP
IYDYEFSMSGNHPYHKTCYKEQFHPKCDVCKQFIPTNMNGLIEYRAHPFWVQKYCPSHEMDGTP
RCCSCERMEPRESKYVLLDDGRKLCLECLDSAVMDTNDCQPLYLEIQEFYEGLNMKVEQQVPLL
LVERQALNEAMEGEKAGHHHLPETRGLCLSEEQTVSTILRPRMAGNKIMGMITEPYRLTRRCEV
TAILILYGLPRACAGCHREIGHGRFLSCMGAVWHPECFRCHACSQPIYDYEFSMSGNHPYHKTC
YKEQFHPKCDVCKQFIPTNMNGLIEYRAHPFWVQKYCPSHEMDGTPRCCSCERMEPRESKYVLL
DDGRKLCLECLDSAVMDTNDCQPLYLEIQEFYEGLNMKVEQQVPLLLVERQALNEAMEGEKAGH
HHLPETRGLCLSEEQTVSTILRPRMAGNKIMGMITEPYRLTRRCEVTAILILYGLPRACAGCHR
EIGHGRFLSCMGAVWHPECFRCHACSQPIYDYEFSMSGNHPYHKTCYKEQFHPKCDVCKQFIPT
NMNGLIEYRAHPFWVQKYCPSHEMDGTPRCCSCERMEPRESKYVLLDDGRKLCLECLDSAVMDT
NDCQPLYLEIQEFYEGLNMKVEQQVPLLLVERQALNEAMEGEKAGHHHLPETRGLCLSEEQTVS
TILRPRMAGNKIMGMITEPYRLTRRCEVTAILILYGLP(+)
MVSQEHAQDVTERLVTGVFSVAWELFGIRNVFVAMHVVNLYMTMSSPCPGIIHTIKLATRSSFT
RNVMSASSSFLQI*(+)
MCPIFNKAIHICRNELLADITFRVKLLLVASFMVWMIPGHGELIVIYRLTTCMATKTFRMPNSS
HATEKTPVTNLSVTSCACSWETIQNKNCSHFTSPCQPIWLCYHSHNFVSSHSWSQYRANSLFF*
(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						responsive to drought stress

Functional Information
Coding potential	Y
Potential coding position	55325629-55326846(+) 55326838-55326038(+) 55326069-55326608(-)
Potential amino acid sequence	MGAVWHPECFRCHACSQPIYDYEFSMSGNHPYHKTCYKEQFHPKCDVCKQFIPTNMNGLIEYRA HPFWVQKYCPSHEMDGTPRCCSCERMEPRESKYVLLDDGRKLCLECLDSAVMDTNDCQPLYLEI QEFYEGLNMKVEQQVPLLLVERQALNEAMEGEKAGHHHLPETRGLCLSEEQTVSTILRPRMAGN KIMGMITEPYRLTRRCEVTAILILYGLPRACAGCHREIGHGRFLSCMGAVWHPECFRCHACSQP IYDYEFSMSGNHPYHKTCYKEQFHPKCDVCKQFIPTNMNGLIEYRAHPFWVQKYCPSHEMDGTP RCCSCERMEPRESKYVLLDDGRKLCLECLDSAVMDTNDCQPLYLEIQEFYEGLNMKVEQQVPLL LVERQALNEAMEGEKAGHHHLPETRGLCLSEEQTVSTILRPRMAGNKIMGMITEPYRLTRRCEV TAILILYGLPRACAGCHREIGHGRFLSCMGAVWHPECFRCHACSQPIYDYEFSMSGNHPYHKTC YKEQFHPKCDVCKQFIPTNMNGLIEYRAHPFWVQKYCPSHEMDGTPRCCSCERMEPRESKYVLL DDGRKLCLECLDSAVMDTNDCQPLYLEIQEFYEGLNMKVEQQVPLLLVERQALNEAMEGEKAGH HHLPETRGLCLSEEQTVSTILRPRMAGNKIMGMITEPYRLTRRCEVTAILILYGLPRACAGCHR EIGHGRFLSCMGAVWHPECFRCHACSQPIYDYEFSMSGNHPYHKTCYKEQFHPKCDVCKQFIPT NMNGLIEYRAHPFWVQKYCPSHEMDGTPRCCSCERMEPRESKYVLLDDGRKLCLECLDSAVMDT NDCQPLYLEIQEFYEGLNMKVEQQVPLLLVERQALNEAMEGEKAGHHHLPETRGLCLSEEQTVS TILRPRMAGNKIMGMITEPYRLTRRCEVTAILILYGLP(+) MVSQEHAQDVTERLVTGVFSVAWELFGIRNVFVAMHVVNLYMTMSSPCPGIIHTIKLATRSSFT RNVMSASSSFLQI(+) MCPIFNKAIHICRNELLADITFRVKLLLVASFMVWMIPGHGELIVIYRLTTCMATKTFRMPNSS HATEKTPVTNLSVTSCACSWETIQNKNCSHFTSPCQPIWLCYHSHNFVSSHSWSQYRANSLFF (-)
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 Zm00001d035844_circ_g.2

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