Plant Circular RNA Database

Detail information of Zm00001d002349_circ_g.1

			
						 General Information
					
						CircRNA Name
						Zm00001d002349_circ_g.1
					
						ID in PlantcircBase
						zma_circ_007058
					
						Alias
						zma_circ_0000761
					
						Organism
						
							Zea mays						
					
						Position
						
							chr2: 10675907-10678579  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Zm00001d002349						
					
						Parent gene annotation
						
							 kaurene synthase3
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Zm00001d002349_circ_g.2 						
					
						Support reads
						NA
					
						Tissues
						leaf, 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
						Zm00001d002349_T015:10
Zm00001d002349_T008:10
Zm00001d002349_T013:10
Zm00001d002349_T004:9
Zm00001d002349_T005:10
Zm00001d002349_T003:10
Zm00001d002349_T012:10
Zm00001d002349_T014:8
Zm00001d002349_T011:10
Zm00001d002349_T007:9
Zm00001d002349_T010:8
Zm00001d002349_T001:10
Zm00001d002349_T002:10
Zm00001d002349_T006:9
Zm00001d002349_T009:9

General Information
CircRNA Name	Zm00001d002349_circ_g.1
ID in PlantcircBase	zma_circ_007058
Alias	zma_circ_0000761
Organism	Zea mays
Position	chr2: 10675907-10678579 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	find_circ
Parent gene	Zm00001d002349
Parent gene annotation	kaurene synthase3
Parent gene strand	-
Alternative splicing	Zm00001d002349_circ_g.2
Support reads	NA
Tissues	leaf, 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	Zm00001d002349_T015:10 Zm00001d002349_T008:10 Zm00001d002349_T013:10 Zm00001d002349_T004:9 Zm00001d002349_T005:10 Zm00001d002349_T003:10 Zm00001d002349_T012:10 Zm00001d002349_T014:8 Zm00001d002349_T011:10 Zm00001d002349_T007:9 Zm00001d002349_T010:8 Zm00001d002349_T001:10 Zm00001d002349_T002:10 Zm00001d002349_T006:9 Zm00001d002349_T009:9

			
						 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  
						
							ACGTCGGGCATCGGGCCCAGCGAAACCACCCGTTGAAAAAAGTCAGGAGCCAATTCCTGTGGCG
TCCACCGAGACGGGCGCGCCGAAGAAGAAGAGGAACctatcaagatgccgaagttcatcccggt
aaacacgttgagagaaactgaaatcttcgactgccaaagctaggaattcttgattgatacgaaa
agatctga

									
								

					

						Assembled circRNA sequence  
						
							NA
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
						
							NA						
					

						Genomic sequence
						
							CTATCAAGATGCCGAAGTTCATCCCGGTAAACACGTTGAGAGAAACTGAAATCTTCGACTGCCA
AAGCTAGGAATTCTTGATTGATACGAAAAGATCTGATACAGCAAAGTGTACAACATTGGTACGC
AGCATCTAAACTACTTAAAACTGATGAGATGTACTTCTGTGAAAATAAAATCTTACGAGGATTT
TGTTGTTAGCATCAGAGAACCCCAAGCATCAAAATGTTCGATGTTTCTCTTGTGTTCTAGACGC
TCCAGTGTGGAATACAAGGGAAAATTAACAGCATACTCGATCTGAAATCACAAAACACAGACAT
AAACTGAACCTCCAAGGTGAAAATGAGAATTTAAATTTTGTTTGCAGCACCTCTCCAAAAATCG
AGTCTTTTTGCACCCTACTACAGCACATCTTATCCTTCAATAAGTTGCCAGACCAGGATCCTAT
GCGATCTAAGATCAGATCGTTTTCTGATAAGGTGACTTTTGAGGTCTTGTACAATTCCAGTAGG
GATTTTGTATCATTTAAATATCCTTGTAGTGAATCATGGAAAGTGGAAGCTCCAGCAACGTGAG
ACAGCTCATCTGATGTAAATTAGTCATTAGTTTCGTCAATGCCAAAGAAAATCCAATGCTGTCT
GGAATACCAGATTTGCGAGTCCTGAAGTACCTGAGGAAACATCGTAACCATTCATCCTCAAAAG
GCGAAATGCCATTGCAAATGTTGCTATGTCCATCATGAGTTCCTCATCATTCTGTAACCAGCAA
CTGCAAGATGGATGTAGTCAAGTATATAATATAAGTTACTAAAGGAAGATATAAAATTTTCAAA
CAAGACAATTACTTGTATGCCATGTCCAGGATGCTTTCTATTTCACTGACAAAGCGCTGAGAAA
TTCCCATTTTTTCAAGCGCGTCCACCATTGAAAGCTGACAATGTACCCTTGAAGGATACATTGC
TGGTACTGCAAAAGCCTTATGCCATTAGCCATTAGGTATTAACCAACAGTCCAAATGCTAGAAC
GACTGTGAGATAGAAAAGTACAGCATCACACCTGCACTGCCAAATTCATTGACAAGCAAATTTA
GGTATTGAAGGGCTTGGTCGTTGTATTTGTGGATTAATGCAACAGCAGTTGTGGAAGGAGTGCT
GAACAATGATCCATTCTTCCTCTGAAACTTCATAACTTGATCCCAGTCCAGCATATTTCCGAAT
CCTTCTGGGATAAAAGCCATATATGCTTTTCTTCCAAAAGAACTATCCACAGCCAGCCTAAATT
AAAACAACTATCAGGACTTTCAGTACATTATTCACAAGTTCATGTCAAATTCTGGTTTACTCAA
AAGTCAATGTGAACAACCATCACAAGCACTCCTTTCCAGCAAACTATGGTTATCTGACAAATTA
ATGCAAATTCCTTTGTTCTTCAAAAACAAGAAAAATAAACTAAACGACGGGTAAATCTGCTCAT
AAGATAAAAGTTCTCCCTGGCATGCAAACACAAGGGAAATACTAGATGGTTTTTCATGCCAGGA
TAAGTCAGTGACAAACCTTTTCAATTCCATCTCCCGGCGGTGAAGAATGCCACAGACATCAATT
TGTCTTACAGGAAATTCTAAACCCATATCAATGCCGAGGCTAAGCAAACCAGGAAAGGTGAAGT
TGAAACCTATAGGAGAAGTGAACTGCTCGTCCATAGCAACAGAGAAATTCCTCCCGATGAAATG
CAGTCCTGTCCAAAACAAAAAAAAAAGAAAAAGAAAAAAAAGTGAATGTCAGCATCAATTTTCA
CTGAAATAAAAACACCTTCAAATCTCTCTCGATGAACCTCAATTTATACCTCTCCAAATGTTCT
CTCTGCCAACATTCCATCTCTTCAACGCAAGAACACATGCCAACGTGGATAGGAGAACATCCTT
GCTGACCGATGAGTCAGATTGGCTGACACCCCAAGATCCATCATCCTGCTGGTTCTGCAGTATC
CACTCAACACACTGTGGGAAGCGGGGAGTCTGATGAGAGCCCCGCACTGGCACCATAGAAACCC
ACGCTGTGTCGTATGAAGAAGGTGGCAACTGGGGCTTCCGGAGCTGATTCCTTATTATAGTCTC
AAGTTGTTCTTTATGCTGCAATTTATTAGCATGCTAGTGTGTTATTTAATAGAATCTCACAGCA
AACTGCACGTGTATAATAATTAATAATGAGGCTCATACCATGTTTGGCAGGCTTGTGTTTTCTG
CAACCAACCGCCTCTCGGCATACGCTGTTGGAAGAAAGGAATCAGATAGCAATCAGGACACCAG
TCGTGGAAGATTCGTCGCAGGCATAATAAGAATATTAAGTAACCCTTTGCAACTTGCAAACGAG
TGCTCATATATATAAAAGAAAAAAAAACAACCCTTTCTAGTAGCCATCGAAGGCGACAAAAACT
ACAACAAATAACATTTTTCCCCACAACGGATGGAACCAAAAAGACGGCGTGTACGTACCTCTAG
CGACCCCGGGAAGAGATGCTCTGCCTCTGCTCGGAATCACCCCGCGAGGCGAGAAGCCGGTTAG
GGCTGCGGCCATAACGTCGGGCATCGGGCCCAGCGAAACCACCCGTTGAAAAAAGTCAGGAGCC
AATTCCTGTGGCGTCCACCGAGACGGGCGCGCCGAAGAAGAAGAGGAAC
						
					

			
		

Sequences
Splice junction sequence	ACGTCGGGCATCGGGCCCAGCGAAACCACCCGTTGAAAAAAGTCAGGAGCCAATTCCTGTGGCG TCCACCGAGACGGGCGCGCCGAAGAAGAAGAGGAACctatcaagatgccgaagttcatcccggt aaacacgttgagagaaactgaaatcttcgactgccaaagctaggaattcttgattgatacgaaa agatctga
Assembled circRNA sequence	NA 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	NA
Genomic sequence	CTATCAAGATGCCGAAGTTCATCCCGGTAAACACGTTGAGAGAAACTGAAATCTTCGACTGCCA AAGCTAGGAATTCTTGATTGATACGAAAAGATCTGATACAGCAAAGTGTACAACATTGGTACGC AGCATCTAAACTACTTAAAACTGATGAGATGTACTTCTGTGAAAATAAAATCTTACGAGGATTT TGTTGTTAGCATCAGAGAACCCCAAGCATCAAAATGTTCGATGTTTCTCTTGTGTTCTAGACGC TCCAGTGTGGAATACAAGGGAAAATTAACAGCATACTCGATCTGAAATCACAAAACACAGACAT AAACTGAACCTCCAAGGTGAAAATGAGAATTTAAATTTTGTTTGCAGCACCTCTCCAAAAATCG AGTCTTTTTGCACCCTACTACAGCACATCTTATCCTTCAATAAGTTGCCAGACCAGGATCCTAT GCGATCTAAGATCAGATCGTTTTCTGATAAGGTGACTTTTGAGGTCTTGTACAATTCCAGTAGG GATTTTGTATCATTTAAATATCCTTGTAGTGAATCATGGAAAGTGGAAGCTCCAGCAACGTGAG ACAGCTCATCTGATGTAAATTAGTCATTAGTTTCGTCAATGCCAAAGAAAATCCAATGCTGTCT GGAATACCAGATTTGCGAGTCCTGAAGTACCTGAGGAAACATCGTAACCATTCATCCTCAAAAG GCGAAATGCCATTGCAAATGTTGCTATGTCCATCATGAGTTCCTCATCATTCTGTAACCAGCAA CTGCAAGATGGATGTAGTCAAGTATATAATATAAGTTACTAAAGGAAGATATAAAATTTTCAAA CAAGACAATTACTTGTATGCCATGTCCAGGATGCTTTCTATTTCACTGACAAAGCGCTGAGAAA TTCCCATTTTTTCAAGCGCGTCCACCATTGAAAGCTGACAATGTACCCTTGAAGGATACATTGC TGGTACTGCAAAAGCCTTATGCCATTAGCCATTAGGTATTAACCAACAGTCCAAATGCTAGAAC GACTGTGAGATAGAAAAGTACAGCATCACACCTGCACTGCCAAATTCATTGACAAGCAAATTTA GGTATTGAAGGGCTTGGTCGTTGTATTTGTGGATTAATGCAACAGCAGTTGTGGAAGGAGTGCT GAACAATGATCCATTCTTCCTCTGAAACTTCATAACTTGATCCCAGTCCAGCATATTTCCGAAT CCTTCTGGGATAAAAGCCATATATGCTTTTCTTCCAAAAGAACTATCCACAGCCAGCCTAAATT AAAACAACTATCAGGACTTTCAGTACATTATTCACAAGTTCATGTCAAATTCTGGTTTACTCAA AAGTCAATGTGAACAACCATCACAAGCACTCCTTTCCAGCAAACTATGGTTATCTGACAAATTA ATGCAAATTCCTTTGTTCTTCAAAAACAAGAAAAATAAACTAAACGACGGGTAAATCTGCTCAT AAGATAAAAGTTCTCCCTGGCATGCAAACACAAGGGAAATACTAGATGGTTTTTCATGCCAGGA TAAGTCAGTGACAAACCTTTTCAATTCCATCTCCCGGCGGTGAAGAATGCCACAGACATCAATT TGTCTTACAGGAAATTCTAAACCCATATCAATGCCGAGGCTAAGCAAACCAGGAAAGGTGAAGT TGAAACCTATAGGAGAAGTGAACTGCTCGTCCATAGCAACAGAGAAATTCCTCCCGATGAAATG CAGTCCTGTCCAAAACAAAAAAAAAAGAAAAAGAAAAAAAAGTGAATGTCAGCATCAATTTTCA CTGAAATAAAAACACCTTCAAATCTCTCTCGATGAACCTCAATTTATACCTCTCCAAATGTTCT CTCTGCCAACATTCCATCTCTTCAACGCAAGAACACATGCCAACGTGGATAGGAGAACATCCTT GCTGACCGATGAGTCAGATTGGCTGACACCCCAAGATCCATCATCCTGCTGGTTCTGCAGTATC CACTCAACACACTGTGGGAAGCGGGGAGTCTGATGAGAGCCCCGCACTGGCACCATAGAAACCC ACGCTGTGTCGTATGAAGAAGGTGGCAACTGGGGCTTCCGGAGCTGATTCCTTATTATAGTCTC AAGTTGTTCTTTATGCTGCAATTTATTAGCATGCTAGTGTGTTATTTAATAGAATCTCACAGCA AACTGCACGTGTATAATAATTAATAATGAGGCTCATACCATGTTTGGCAGGCTTGTGTTTTCTG CAACCAACCGCCTCTCGGCATACGCTGTTGGAAGAAAGGAATCAGATAGCAATCAGGACACCAG TCGTGGAAGATTCGTCGCAGGCATAATAAGAATATTAAGTAACCCTTTGCAACTTGCAAACGAG TGCTCATATATATAAAAGAAAAAAAAACAACCCTTTCTAGTAGCCATCGAAGGCGACAAAAACT ACAACAAATAACATTTTTCCCCACAACGGATGGAACCAAAAAGACGGCGTGTACGTACCTCTAG CGACCCCGGGAAGAGATGCTCTGCCTCTGCTCGGAATCACCCCGCGAGGCGAGAAGCCGGTTAG GGCTGCGGCCATAACGTCGGGCATCGGGCCCAGCGAAACCACCCGTTGAAAAAAGTCAGGAGCC AATTCCTGTGGCGTCCACCGAGACGGGCGCGCCGAAGAAGAAGAGGAAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.039812601

Conservation Information
Conserved circRNAs	NA
PMCS	0.039812601

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							10675930-10678524(-)
10678492-10678524(-)
						
						Potential amino acid sequence
						
							MNFGILIGSSSSSARPSRWTPQELAPDFFQRVVSLGPMPDVMAAALTGFSPRGVIPSRGRASLP
GVARAYAERRLVAENTSLPNMHKEQLETIIRNQLRKPQLPPSSYDTAWVSMVPVRGSHQTPRFP
QCVEWILQNQQDDGSWGVSQSDSSVSKDVLLSTLACVLALKRWNVGRENIWRGLHFIGRNFSVA
MDEQFTSPIGFNFTFPGLLSLGIDMGLEFPVRQIDVCGILHRREMELKRLAVDSSFGRKAYMAF
IPEGFGNMLDWDQVMKFQRKNGSLFSTPSTTAVALIHKYNDQALQYLNLLVNEFGSAVPAMYPS
RVHCQLSMVDALEKMGISQRFVSEIESILDMAYNCWLQNDEELMMDIATFAMAFRLLRMNGYDV
SSDELSHVAGASTFHDSLQGYLNDTKSLLELYKTSKVTLSENDLILDRIGSWSGNLLKDKMCCS
RVQKDSIFGEIEYAVNFPLYSTLERLEHKRNIEHFDAWGSLMLTTKSSSFRINQEFLALAVEDF
SFSQRVYRDELRHLDRFLFFFGAPVSVDATGIGS*(-)
MPDVMAAALTGFSPRGVIPSRGRASLPGVARAYAERRLVAENTSLPNMHKEQLETIIRNQLRKP
QLPPSSYDTAWVSMVPVRGSHQTPRFPQCVEWILQNQQDDGSWGVSQSDSSVSKDVLLSTLACV
LALKRWNVGRENIWRGLHFIGRNFSVAMDEQFTSPIGFNFTFPGLLSLGIDMGLEFPVRQIDVC
GILHRREMELKRLAVDSSFGRKAYMAFIPEGFGNMLDWDQVMKFQRKNGSLFSTPSTTAVALIH
KYNDQALQYLNLLVNEFGSAVPAMYPSRVHCQLSMVDALEKMGISQRFVSEIESILDMAYNCWL
QNDEELMMDIATFAMAFRLLRMNGYDVSSDELSHVAGASTFHDSLQGYLNDTKSLLELYKTSKV
TLSENDLILDRIGSWSGNLLKDKMCCSRVQKDSIFGEIEYAVNFPLYSTLERLEHKRNIEHFDA
WGSLMLTTKSSSFRINQEFLALAVEDFSFSQRVYRDELRHLDRFLFFFGAPVSVDATGIGS*(-
)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	10675930-10678524(-) 10678492-10678524(-)
Potential amino acid sequence	MNFGILIGSSSSSARPSRWTPQELAPDFFQRVVSLGPMPDVMAAALTGFSPRGVIPSRGRASLP GVARAYAERRLVAENTSLPNMHKEQLETIIRNQLRKPQLPPSSYDTAWVSMVPVRGSHQTPRFP QCVEWILQNQQDDGSWGVSQSDSSVSKDVLLSTLACVLALKRWNVGRENIWRGLHFIGRNFSVA MDEQFTSPIGFNFTFPGLLSLGIDMGLEFPVRQIDVCGILHRREMELKRLAVDSSFGRKAYMAF IPEGFGNMLDWDQVMKFQRKNGSLFSTPSTTAVALIHKYNDQALQYLNLLVNEFGSAVPAMYPS RVHCQLSMVDALEKMGISQRFVSEIESILDMAYNCWLQNDEELMMDIATFAMAFRLLRMNGYDV SSDELSHVAGASTFHDSLQGYLNDTKSLLELYKTSKVTLSENDLILDRIGSWSGNLLKDKMCCS RVQKDSIFGEIEYAVNFPLYSTLERLEHKRNIEHFDAWGSLMLTTKSSSFRINQEFLALAVEDF SFSQRVYRDELRHLDRFLFFFGAPVSVDATGIGS(-) MPDVMAAALTGFSPRGVIPSRGRASLPGVARAYAERRLVAENTSLPNMHKEQLETIIRNQLRKP QLPPSSYDTAWVSMVPVRGSHQTPRFPQCVEWILQNQQDDGSWGVSQSDSSVSKDVLLSTLACV LALKRWNVGRENIWRGLHFIGRNFSVAMDEQFTSPIGFNFTFPGLLSLGIDMGLEFPVRQIDVC GILHRREMELKRLAVDSSFGRKAYMAFIPEGFGNMLDWDQVMKFQRKNGSLFSTPSTTAVALIH KYNDQALQYLNLLVNEFGSAVPAMYPSRVHCQLSMVDALEKMGISQRFVSEIESILDMAYNCWL QNDEELMMDIATFAMAFRLLRMNGYDVSSDELSHVAGASTFHDSLQGYLNDTKSLLELYKTSKV TLSENDLILDRIGSWSGNLLKDKMCCSRVQKDSIFGEIEYAVNFPLYSTLERLEHKRNIEHFDA WGSLMLTTKSSSFRINQEFLALAVEDFSFSQRVYRDELRHLDRFLFFFGAPVSVDATGIGS(- )
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ma et al., 2021b

circRNA

Detail information of Zm00001d002349_circ_g.1

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