Plant Circular RNA Database

Detail information of Zm00001d037867_circ_g.5

			
						 General Information
					
						CircRNA Name
						Zm00001d037867_circ_g.5
					
						ID in PlantcircBase
						zma_circ_009072
					
						Alias
						Zm06circ00069, zma_circ_0002239, GRMZM2G439950_C2
					
						Organism
						
							Zea mays						
					
						Position
						
							chr6: 140354885-140368454  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRI2, find_circ
					
						Parent gene
						
							Zm00001d037867						
					
						Parent gene annotation
						
							protein_coding
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Zm00001d037867_circ_g.1 Zm00001d037867_circ_g.2 Zm00001d037867_circ_g.3 Zm00001d037867_circ_g.4 Zm00001d037867_circ_g.6 Zm00001d037867_circ_g.7 Zm00001d037867_circ_g.8 Zm00001d037867_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  
						
							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
						Zm00001d037867_T022:9
Zm00001d037867_T001:9
Zm00001d037867_T031:9
Zm00001d037867_T003:9
Zm00001d037867_T009:9
Zm00001d037867_T032:6
Zm00001d037867_T002:9
Zm00001d037867_T005:9
Zm00001d037867_T008:9
Zm00001d037867_T026:9
Zm00001d037867_T007:9
Zm00001d037867_T030:9
Zm00001d037867_T015:9
Zm00001d037867_T011:7
Zm00001d037867_T029:9
Zm00001d037867_T013:9
Zm00001d037867_T028:9
Zm00001d037867_T021:9
Zm00001d037867_T004:9

General Information
CircRNA Name	Zm00001d037867_circ_g.5
ID in PlantcircBase	zma_circ_009072
Alias	Zm06circ00069, zma_circ_0002239, GRMZM2G439950_C2
Organism	Zea mays
Position	chr6: 140354885-140368454 JBrowse»
Reference genome	AGPv4.38
Type	ue-circRNA
Identification method	CIRI2, find_circ
Parent gene	Zm00001d037867
Parent gene annotation	protein_coding
Parent gene strand	+
Alternative splicing	Zm00001d037867_circ_g.1 Zm00001d037867_circ_g.2 Zm00001d037867_circ_g.3 Zm00001d037867_circ_g.4 Zm00001d037867_circ_g.6 Zm00001d037867_circ_g.7 Zm00001d037867_circ_g.8 Zm00001d037867_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	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	Zm00001d037867_T022:9 Zm00001d037867_T001:9 Zm00001d037867_T031:9 Zm00001d037867_T003:9 Zm00001d037867_T009:9 Zm00001d037867_T032:6 Zm00001d037867_T002:9 Zm00001d037867_T005:9 Zm00001d037867_T008:9 Zm00001d037867_T026:9 Zm00001d037867_T007:9 Zm00001d037867_T030:9 Zm00001d037867_T015:9 Zm00001d037867_T011:7 Zm00001d037867_T029:9 Zm00001d037867_T013:9 Zm00001d037867_T028:9 Zm00001d037867_T021:9 Zm00001d037867_T004:9

			
						 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  
						
							AAAAGAGGTCCAAGAAGTTAGAACAGTTGATGAGAGGAAAGCTAGCGAAATTACTCAGCTTACA
ATGCCAAAGCTTTGTGTTCGTCTTAACAGTCTATATtttgttcttacaggtgagcaaggacttc
tgaaagtcgtgattgacaatttgaggaagatacctttgaaagaacagcgtggtccgcaagaaag
attacact

									
								

					

						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: 1185
Transcript exons: 140354885-140355115,140355745-140355819,140355995-140356
066,140356944-140357129,140357214-140357372,140357565-14
0357657,140359324-140359395,140367937-140368054,14036827
6-140368454
TTTGTTCTTACAGGTGAGCAAGGACTTCTGAAAGTCGTGATTGACAATTTGAGGAAGATACCTT
TGAAAGAACAGCGTGGTCCGCAAGAAAGATTACACTTGAAAAGCCTGCGTAGTTCTGTTGATGC
TGAGGGTAGCTATCAAGACTTCACATTTTTCCAGTCTTTCCTGTCTCCAATTCAGAAATGGACG
GACAAGAAACTAAATGACTATCACCTACATTTCTCCGAGGGCTCCAGCTTGATGGCTGATGTTG
TGACAGTGGCAATGCTTACAAGGCGGATCCTTGGTGAAGAAAATGACAAGGTAGCGGAGTCTCC
TGACAGAGATCAGATTGACCGATACATCACTTCTTCAGTCAAAAATACTTTCTTGAAGATGGCA
CATTCTGTAGAGTTCAAAGCAGACACTACAAATGAGCATGTTTTAGCATCTCTAGCTGAGGAGA
CAAAGAAACTGCTGAAAAAAGATACAGCCATTTTTACACCTGTTTTGACAAAATGGCATCCACA
GGCAGCAGTTGTTTCTGCTTCCCTCATTCATAAACTTTATGGAAATAAATTGAGACCATTTCTT
GAGCATGCTGAGCATCTTACGGAGGATGTGGTTTCTGTATTTCCGGCAGCTGATGCTTTGGAGC
AATACGTAATGTCTGTGATGGCCTCCGTCACGGGAGATGATGGTTTGGATAGCCTATGCAGACA
TAAACTAGTTCCATATCAGATTGAAAGTAAATCTGGTACATTAGTTTTACGCTGGGTAAATGGG
CAACTTGAGAGAATTGAAACTTGGGTTAAAAGGGCTGCTGACCAAGAGGTTTGGGACCCTATAT
CCCCTCAACAACGCCATGGAAATTCTATTGTAGAAGTCTATAGAATCATAGAAGAGACTGCAGA
TCAATTTTTTGCATTTAAGGTTCCTATGCGAGATGGAGAATTAAATAGTCTATGCCGTGGTCTT
GACAAGGCATTCCAAGTTTATACACAGCTGGTTACTGCACCCCTAGTTGATAAAGAAGATTTAG
CTCCGCCTATTCCTGTTCTTACTCGATATAAAAAGGAGCTTGGAATCAAGGCTTTTGTAAAAAA
AGAGGTCCAAGAAGTTAGAACAGTTGATGAGAGGAAAGCTAGCGAAATTACTCAGCTTACAATG
CCAAAGCTTTGTGTTCGTCTTAACAGTCTATAT
						
					

						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	AAAAGAGGTCCAAGAAGTTAGAACAGTTGATGAGAGGAAAGCTAGCGAAATTACTCAGCTTACA ATGCCAAAGCTTTGTGTTCGTCTTAACAGTCTATATtttgttcttacaggtgagcaaggacttc tgaaagtcgtgattgacaatttgaggaagatacctttgaaagaacagcgtggtccgcaagaaag attacact
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: 1185 Transcript exons: 140354885-140355115,140355745-140355819,140355995-140356 066,140356944-140357129,140357214-140357372,140357565-14 0357657,140359324-140359395,140367937-140368054,14036827 6-140368454 TTTGTTCTTACAGGTGAGCAAGGACTTCTGAAAGTCGTGATTGACAATTTGAGGAAGATACCTT TGAAAGAACAGCGTGGTCCGCAAGAAAGATTACACTTGAAAAGCCTGCGTAGTTCTGTTGATGC TGAGGGTAGCTATCAAGACTTCACATTTTTCCAGTCTTTCCTGTCTCCAATTCAGAAATGGACG GACAAGAAACTAAATGACTATCACCTACATTTCTCCGAGGGCTCCAGCTTGATGGCTGATGTTG TGACAGTGGCAATGCTTACAAGGCGGATCCTTGGTGAAGAAAATGACAAGGTAGCGGAGTCTCC TGACAGAGATCAGATTGACCGATACATCACTTCTTCAGTCAAAAATACTTTCTTGAAGATGGCA CATTCTGTAGAGTTCAAAGCAGACACTACAAATGAGCATGTTTTAGCATCTCTAGCTGAGGAGA CAAAGAAACTGCTGAAAAAAGATACAGCCATTTTTACACCTGTTTTGACAAAATGGCATCCACA GGCAGCAGTTGTTTCTGCTTCCCTCATTCATAAACTTTATGGAAATAAATTGAGACCATTTCTT GAGCATGCTGAGCATCTTACGGAGGATGTGGTTTCTGTATTTCCGGCAGCTGATGCTTTGGAGC AATACGTAATGTCTGTGATGGCCTCCGTCACGGGAGATGATGGTTTGGATAGCCTATGCAGACA TAAACTAGTTCCATATCAGATTGAAAGTAAATCTGGTACATTAGTTTTACGCTGGGTAAATGGG CAACTTGAGAGAATTGAAACTTGGGTTAAAAGGGCTGCTGACCAAGAGGTTTGGGACCCTATAT CCCCTCAACAACGCCATGGAAATTCTATTGTAGAAGTCTATAGAATCATAGAAGAGACTGCAGA TCAATTTTTTGCATTTAAGGTTCCTATGCGAGATGGAGAATTAAATAGTCTATGCCGTGGTCTT GACAAGGCATTCCAAGTTTATACACAGCTGGTTACTGCACCCCTAGTTGATAAAGAAGATTTAG CTCCGCCTATTCCTGTTCTTACTCGATATAAAAAGGAGCTTGGAATCAAGGCTTTTGTAAAAAA AGAGGTCCAAGAAGTTAGAACAGTTGATGAGAGGAAAGCTAGCGAAATTACTCAGCTTACAATG CCAAAGCTTTGTGTTCGTCTTAACAGTCTATAT
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
						0.125544513

Conservation Information
Conserved circRNAs	NA
PMCS	0.125544513

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							140355758-140368451(+)
140368385-140354912(+)
						
					

						Potential amino acid sequence
						
							MADVVTVAMLTRRILGEENDKVAESPDRDQIDRYITSSVKNTFLKMAHSVEFKADTTNEHVLAS
LAEETKKLLKKDTAIFTPVLTKWHPQAAVVSASLIHKLYGNKLRPFLEHAEHLTEDVVSVFPAA
DALEQYVMSVMASVTGDDGLDSLCRHKLVPYQIESKSGTLVLRWVNGQLERIETWVKRAADQEV
WDPISPQQRHGNSIVEVYRIIEETADQFFAFKVPMRDGELNSLCRGLDKAFQVYTQLVTAPLVD
KEDLAPPIPVLTRYKKELGIKAFVKKEVQEVRTVDERKASEITQLTMPKLCVRLNSLYFVLTGE
QGLLKVVIDNLRKIPLKEQRGPQERLHLKSLRSSVDAEGSYQDFTFFQSFLSPIQKWTDKKLND
YHLHFSEGSSLMADVVTVAMLTRRILGEENDKVAESPDRDQIDRYITSSVKNTFLKMAHSVEFK
ADTTNEHVLASLAEETKKLLKKDTAIFTPVLTKWHPQAAVVSASLIHKLYGNKLRPFLEHAEHL
TEDVVSVFPAADALEQYVMSVMASVTGDDGLDSLCRHKLVPYQIESKSGTLVLRWVNGQLERIE
TWVKRAADQEVWDPISPQQRHGNSIVEVYRIIEETADQFFAFKVPMRDGELNSLCRGLDKAFQV
YTQLVTAPLVDKEDLAPPIPVLTRYKKELGIKAFVKKEVQEVRTVDERKASEITQLTMPKLCVR
LNSLYFVLTGEQGLLKVVIDNLRKIPLKEQRGPQERLHLKSLRSSVDAEGSYQDFTFFQSFLSP
IQKWTDKKLNDYHLHFSEGSSLMADVVTVAMLTRRILGEENDKVAESPDRDQIDRYITSSVKNT
FLKMAHSVEFKADTTNEHVLASLAEETKKLLKKDTAIFTPVLTKWHPQAAVVSASLIHKLYGNK
LRPFLEHAEHLTEDVVSVFPAADALEQYVMSVMASVTGDDGLDSLCRHKLVPYQIESKSGTLVL
RWVNGQLERIETWVKRAADQEVWDPISPQQRHGNSIVEVYRIIEETADQFFAFKVPMRDGELNS
LCRGLDKAFQVYTQLVTAPLVDKEDLAPPIPVLTRYKKELGIKAFVKKEVQEVRTVDERKASEI
TQLTMPKLCVRLNSLYFVLTGEQGLLKVVIDNLRKIPLKEQRGPQERLHLKSLRSSVDAEGSYQ
DFTFFQSFLSPIQKWTDKKLNDYHLHFSEGSSLMADVVTVAMLTRRILGEENDKVAESPDRDQI
DRYITSSVKNTFLKMAHSVEFKADTTNEHVLASLAEETKKLLKKDTAIFTPVLTKWHPQAAVVS
ASLIHKLYGNKLRPFLEHAEHLTEDVVSVFPAADALEQYVMSVMASVTGDDGLDSLCRHKLVPY
QIESKSGTLVLRWVNGQLERIETWVKRAADQEVWDPISPQQRHGNSIVEVYRIIEETADQFFAF
KVPMRDGELNSLCRGLDKAFQVYTQLVTAPLVDKEDLAPPIPVLTRYKKELGIKAFVKKEVQEV
RTVDERKASEITQLTMPKLCVRLNSLY(+)
MRGKLAKLLSLQCQSFVFVLTVYILFLQVSKDF*(+)
						
					

						Sponge-miRNAs
						
							zma-miR396g-3p 						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						responsive to drought stress
					

			
		

Functional Information
Coding potential	Y
Potential coding position	140355758-140368451(+) 140368385-140354912(+)
Potential amino acid sequence	MADVVTVAMLTRRILGEENDKVAESPDRDQIDRYITSSVKNTFLKMAHSVEFKADTTNEHVLAS LAEETKKLLKKDTAIFTPVLTKWHPQAAVVSASLIHKLYGNKLRPFLEHAEHLTEDVVSVFPAA DALEQYVMSVMASVTGDDGLDSLCRHKLVPYQIESKSGTLVLRWVNGQLERIETWVKRAADQEV WDPISPQQRHGNSIVEVYRIIEETADQFFAFKVPMRDGELNSLCRGLDKAFQVYTQLVTAPLVD KEDLAPPIPVLTRYKKELGIKAFVKKEVQEVRTVDERKASEITQLTMPKLCVRLNSLYFVLTGE QGLLKVVIDNLRKIPLKEQRGPQERLHLKSLRSSVDAEGSYQDFTFFQSFLSPIQKWTDKKLND YHLHFSEGSSLMADVVTVAMLTRRILGEENDKVAESPDRDQIDRYITSSVKNTFLKMAHSVEFK ADTTNEHVLASLAEETKKLLKKDTAIFTPVLTKWHPQAAVVSASLIHKLYGNKLRPFLEHAEHL TEDVVSVFPAADALEQYVMSVMASVTGDDGLDSLCRHKLVPYQIESKSGTLVLRWVNGQLERIE TWVKRAADQEVWDPISPQQRHGNSIVEVYRIIEETADQFFAFKVPMRDGELNSLCRGLDKAFQV YTQLVTAPLVDKEDLAPPIPVLTRYKKELGIKAFVKKEVQEVRTVDERKASEITQLTMPKLCVR LNSLYFVLTGEQGLLKVVIDNLRKIPLKEQRGPQERLHLKSLRSSVDAEGSYQDFTFFQSFLSP IQKWTDKKLNDYHLHFSEGSSLMADVVTVAMLTRRILGEENDKVAESPDRDQIDRYITSSVKNT FLKMAHSVEFKADTTNEHVLASLAEETKKLLKKDTAIFTPVLTKWHPQAAVVSASLIHKLYGNK LRPFLEHAEHLTEDVVSVFPAADALEQYVMSVMASVTGDDGLDSLCRHKLVPYQIESKSGTLVL RWVNGQLERIETWVKRAADQEVWDPISPQQRHGNSIVEVYRIIEETADQFFAFKVPMRDGELNS LCRGLDKAFQVYTQLVTAPLVDKEDLAPPIPVLTRYKKELGIKAFVKKEVQEVRTVDERKASEI TQLTMPKLCVRLNSLYFVLTGEQGLLKVVIDNLRKIPLKEQRGPQERLHLKSLRSSVDAEGSYQ DFTFFQSFLSPIQKWTDKKLNDYHLHFSEGSSLMADVVTVAMLTRRILGEENDKVAESPDRDQI DRYITSSVKNTFLKMAHSVEFKADTTNEHVLASLAEETKKLLKKDTAIFTPVLTKWHPQAAVVS ASLIHKLYGNKLRPFLEHAEHLTEDVVSVFPAADALEQYVMSVMASVTGDDGLDSLCRHKLVPY QIESKSGTLVLRWVNGQLERIETWVKRAADQEVWDPISPQQRHGNSIVEVYRIIEETADQFFAF KVPMRDGELNSLCRGLDKAFQVYTQLVTAPLVDKEDLAPPIPVLTRYKKELGIKAFVKKEVQEV RTVDERKASEITQLTMPKLCVRLNSLY(+) MRGKLAKLLSLQCQSFVFVLTVYILFLQVSKDF*(+)
Sponge-miRNAs	zma-miR396g-3p
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 Zm00001d037867_circ_g.5

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