Plant Circular RNA Database

Detail information of Zm00001d014340_circ_g.5

			
						 General Information
					
						CircRNA Name
						Zm00001d014340_circ_g.5
					
						ID in PlantcircBase
						zma_circ_008465
					
						Alias
						Zm05circ00038, zma_circ_0001808, GRMZM2G151195_C2
					
						Organism
						
							Zea mays						
					
						Position
						
							chr5: 41559585-41565107  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRI2, find_circ
					
						Parent gene
						
							Zm00001d014340						
					
						Parent gene annotation
						
							Whole genome shotgun sequence of line PN40024 scaffold_7.assembl
y12x (Fragment)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Zm00001d014340_circ_g.1 Zm00001d014340_circ_g.2 Zm00001d014340_circ_g.3 Zm00001d014340_circ_g.4 Zm00001d014340_circ_g.6 Zm00001d014340_circ_g.7 						
					
						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
						Zm00001d014340_T007:5
Zm00001d014340_T014:4
Zm00001d014340_T012:5
Zm00001d014340_T010:6
Zm00001d014340_T009:5
Zm00001d014340_T001:5
Zm00001d014340_T004:5
Zm00001d014340_T008:3
Zm00001d014340_T006:2
Zm00001d014340_T002:5
Zm00001d014340_T013:5
Zm00001d014340_T005:2

General Information
CircRNA Name	Zm00001d014340_circ_g.5
ID in PlantcircBase	zma_circ_008465
Alias	Zm05circ00038, zma_circ_0001808, GRMZM2G151195_C2
Organism	Zea mays
Position	chr5: 41559585-41565107 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	CIRI2, find_circ
Parent gene	Zm00001d014340
Parent gene annotation	Whole genome shotgun sequence of line PN40024 scaffold_7.assembl y12x (Fragment)
Parent gene strand	-
Alternative splicing	Zm00001d014340_circ_g.1 Zm00001d014340_circ_g.2 Zm00001d014340_circ_g.3 Zm00001d014340_circ_g.4 Zm00001d014340_circ_g.6 Zm00001d014340_circ_g.7
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	Zm00001d014340_T007:5 Zm00001d014340_T014:4 Zm00001d014340_T012:5 Zm00001d014340_T010:6 Zm00001d014340_T009:5 Zm00001d014340_T001:5 Zm00001d014340_T004:5 Zm00001d014340_T008:3 Zm00001d014340_T006:2 Zm00001d014340_T002:5 Zm00001d014340_T013:5 Zm00001d014340_T005:2

			
						 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  
						
							ACCTTGAACAGTACAAATTCTTGCGAGCATGCTCAATAAGGGTCTGTTTATCAAGTCTTAACAG
CTCATGTCGTGCATGAGGTGACAGGGCACTCCAAAActgttctttgaagataacagcagcagca
tccaggagaaattctcttgcaagttcagggctcttggcatgcttctgtggatgagcgatatcac
catcaggg

						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: 1221
Transcript exons: 41559585-41559716,41559839-41560210,41560387-41560528,41
564347-41564606,41564793-41565107
CTGTTCTTTGAAGATAACAGCAGCAGCATCCAGGAGAAATTCTCTTGCAAGTTCAGGGCTCTTG
GCATGCTTCTGTGGATGAGCGATATCACCATCAGGGTCATTGCTGTCTCTGTCCACTACATCAT
CTTCATCCTCTTCCTCTGCTTCTTCAGCATACTCAAAGAAACTTCTAATACTTTCACCTTTGGT
AATTGTCACAAATCCATCCCCCACAATTAGCCTCCGGTGAACACATGATTGGCCCTTCAAGGCA
TGCGCCTTCACACAGAATTCAGTACAGCGACCATCCAGCCTCCATGCTCTCAGTGTAACAAAAT
AGTCTTCAAAGTGATCAAGATCGAGGCCTTTCCTGTGGACTTGTCCATTCATGCCCACATTTTC
AAAGTTTAGAATATCAGATTTTCCTTCATCTGTTCCAATAGCCCACTCGAAATGATGGTATATT
CCATCTTGCTCCAATAAAGATTGATGCCAATCAACAAGAATAGCATCCTCGAACACCTCACACT
TAAATGTGGTATCTGCAACACAAAACCAACTAGTGCAGCGAGGTTCCCTTCGCATGCGTTTTAG
TTCCTTGAGCTCCTTGAATTCGCGAATAACATTCCTTCTGCAGTCTCTGCAGAATCTCTTGCTG
TCGAATCTGTGCATAAGTCTTTCAATGAAGTCCTCTTCTTTCATCCTTAAAAGAGATGATCTAG
TTTCTTCACCCAGAGCCGACCAAAAATCCACCAGAGTATCACAAGAAAGGTGTGCAGTGTGCAA
AGCACAGGTATCTCGTGTTCCATGGCCCCTGCCATAGTTAGGTATCACTGGGCTAATCCATCCT
CTGCCACCGCCACCACATGCATCAGGGTAAAGCATCTCACGTTCACGTTCTCTCGCACGTGCAT
TGTCAAATACATTCTGGATCACATGAAGAGATTTTGCATTTATGAAGCAATCAAGAAGAGTTAG
GATGCCATCCTTTGTTGTCGAAAGACCTCCCCAAGGATGAACTGAAGGTTCCTGAACTTCTGCT
TCAACTTCCTGAATCCTTGGCTCACATGAACCTTCATGAAGCAGAGACTTCCCATACATGACTA
TTTGTGTGAAACTTTCCAAAAGCAACCCATTACACCTTGAACAGTACAAATTCTTGCGAGCATG
CTCAATAAGGGTCTGTTTATCAAGTCTTAACAGCTCATGTCGTGCATGAGGTGACAGGGCACTC
CAAAA
						
						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	ACCTTGAACAGTACAAATTCTTGCGAGCATGCTCAATAAGGGTCTGTTTATCAAGTCTTAACAG CTCATGTCGTGCATGAGGTGACAGGGCACTCCAAAActgttctttgaagataacagcagcagca tccaggagaaattctcttgcaagttcagggctcttggcatgcttctgtggatgagcgatatcac catcaggg
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: 1221 Transcript exons: 41559585-41559716,41559839-41560210,41560387-41560528,41 564347-41564606,41564793-41565107 CTGTTCTTTGAAGATAACAGCAGCAGCATCCAGGAGAAATTCTCTTGCAAGTTCAGGGCTCTTG GCATGCTTCTGTGGATGAGCGATATCACCATCAGGGTCATTGCTGTCTCTGTCCACTACATCAT CTTCATCCTCTTCCTCTGCTTCTTCAGCATACTCAAAGAAACTTCTAATACTTTCACCTTTGGT AATTGTCACAAATCCATCCCCCACAATTAGCCTCCGGTGAACACATGATTGGCCCTTCAAGGCA TGCGCCTTCACACAGAATTCAGTACAGCGACCATCCAGCCTCCATGCTCTCAGTGTAACAAAAT AGTCTTCAAAGTGATCAAGATCGAGGCCTTTCCTGTGGACTTGTCCATTCATGCCCACATTTTC AAAGTTTAGAATATCAGATTTTCCTTCATCTGTTCCAATAGCCCACTCGAAATGATGGTATATT CCATCTTGCTCCAATAAAGATTGATGCCAATCAACAAGAATAGCATCCTCGAACACCTCACACT TAAATGTGGTATCTGCAACACAAAACCAACTAGTGCAGCGAGGTTCCCTTCGCATGCGTTTTAG TTCCTTGAGCTCCTTGAATTCGCGAATAACATTCCTTCTGCAGTCTCTGCAGAATCTCTTGCTG TCGAATCTGTGCATAAGTCTTTCAATGAAGTCCTCTTCTTTCATCCTTAAAAGAGATGATCTAG TTTCTTCACCCAGAGCCGACCAAAAATCCACCAGAGTATCACAAGAAAGGTGTGCAGTGTGCAA AGCACAGGTATCTCGTGTTCCATGGCCCCTGCCATAGTTAGGTATCACTGGGCTAATCCATCCT CTGCCACCGCCACCACATGCATCAGGGTAAAGCATCTCACGTTCACGTTCTCTCGCACGTGCAT TGTCAAATACATTCTGGATCACATGAAGAGATTTTGCATTTATGAAGCAATCAAGAAGAGTTAG GATGCCATCCTTTGTTGTCGAAAGACCTCCCCAAGGATGAACTGAAGGTTCCTGAACTTCTGCT TCAACTTCCTGAATCCTTGGCTCACATGAACCTTCATGAAGCAGAGACTTCCCATACATGACTA TTTGTGTGAAACTTTCCAAAAGCAACCCATTACACCTTGAACAGTACAAATTCTTGCGAGCATG CTCAATAAGGGTCTGTTTATCAAGTCTTAACAGCTCATGTCGTGCATGAGGTGACAGGGCACTC CAAAA
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
						0.135605412

Conservation Information
Conserved circRNAs	NA
PMCS	0.135605412

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							41564971-41559587(-)
41559690-41565067(-)
						
					

						Potential amino acid sequence
						
							MYGKSLLHEGSCEPRIQEVEAEVQEPSVHPWGGLSTTKDGILTLLDCFINAKSLHVIQNVFDNA
RAREREREMLYPDACGGGGRGWISPVIPNYGRGHGTRDTCALHTAHLSCDTLVDFWSALGEETR
SSLLRMKEEDFIERLMHRFDSKRFCRDCRRNVIREFKELKELKRMRREPRCTSWFCVADTTFKC
EVFEDAILVDWHQSLLEQDGIYHHFEWAIGTDEGKSDILNFENVGMNGQVHRKGLDLDHFEDYF
VTLRAWRLDGRCTEFCVKAHALKGQSCVHRRLIVGDGFVTITKGESIRSFFEYAEEAEEEDEDD
VVDRDSNDPDGDIAHPQKHAKSPELAREFLLDAAAVIFKEQFWSALSPHARHELLRLDKQTLIE
HARKNLYCSRCNGLLLESFTQIVMYGKSLLHEGSCEPRIQEVEAEVQEPSVHPWGGLSTTKDGI
LTLLDCFINAKSLHVIQNVFDNARAREREREMLYPDACGGGGRGWISPVIPNYGRGHGTRDTCA
LHTAHLSCDTLVDFWSALGEETRSSLLRMKEEDFIERLMHRFDSKRFCRDCRRNVIREFKELKE
LKRMRREPRCTSWFCVADTTFKCEVFEDAILVDWHQSLLEQDGIYHHFEWAIGTDEGKSDILNF
ENVGMNGQVHRKGLDLDHFEDYFVTLRAWRLDGRCTEFCVKAHALKGQSCVHRRLIVGDGFVTI
TKGESIRSFFEYAEEAEEEDEDDVVDRDSNDPDGDIAHPQKHAKSPELAREFLLDAAAVIFKEQ
FWSALSPHARHELLRLDKQTLIEHARKNLYCSRCNGLLLESFTQIVMYGKSLLHEGSCEPRIQE
VEAEVQEPSVHPWGGLSTTKDGILTLLDCFINAKSLHVIQNVFDNARAREREREMLYPDACGGG
GRGWISPVIPNYGRGHGTRDTCALHTAHLSCDTLVDFWSALGEETRSSLLRMKEEDFIERLMHR
FDSKRFCRDCRRNVIREFKELKELKRMRREPRCTSWFCVADTTFKCEVFEDAILVDWHQSLLEQ
DGIYHHFEWAIGTDEGKSDILNFENVGMNGQVHRKGLDLDHFEDYFVTLRAWRLDGRCTEFCVK
AHALKGQSCVHRRLIVGDGFVTITKGESIRSFFEYAEEAEEEDEDDVVDRDSNDPDGDIAHPQK
HAKSPELAREFLLDAAAVIFKEQFWSALSPHARHELLRLDKQTLIEHARKNLYCSRCNGLLLES
FTQIVMYGKSLLHEGSCEPRIQEVEAEVQEPSVHPWGGLSTTKDGILTLLDCFINAKSLHVIQN
VFDNARAREREREMLYPDACGGGGRGWISPVIPNYGRGHGTRDTCALHTAHLSCDTLVDFWSAL
GEETRSSLLRMKEEDFIERLMHRFDSKRFCRDCRRNVIREFKELKELKRMRREPRCTSWFCVAD
TTFKCEVFEDAILVDWHQSLLEQDGIYHHFEWAIGTDEGKSDILNFENVGMNGQVHRKGLDLDH
FEDYFVTLRAWRLDGRCTEFCVKAHALKGQSCVHRRLIVGDGFVTITKGESIRSFFEYAEEAEE
EDEDDVVDRDSNDPDGDIAHPQKHAKSPELAREFLLDAAAVIFKEQ(-)
MTLMVISLIHRSMPRALNLQENFSWMLLLLSSKNSFGVPCHLMHDMSC*(-)
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						responsive to drought stress
					

			
		

Functional Information
Coding potential	Y
Potential coding position	41564971-41559587(-) 41559690-41565067(-)
Potential amino acid sequence	MYGKSLLHEGSCEPRIQEVEAEVQEPSVHPWGGLSTTKDGILTLLDCFINAKSLHVIQNVFDNA RAREREREMLYPDACGGGGRGWISPVIPNYGRGHGTRDTCALHTAHLSCDTLVDFWSALGEETR SSLLRMKEEDFIERLMHRFDSKRFCRDCRRNVIREFKELKELKRMRREPRCTSWFCVADTTFKC EVFEDAILVDWHQSLLEQDGIYHHFEWAIGTDEGKSDILNFENVGMNGQVHRKGLDLDHFEDYF VTLRAWRLDGRCTEFCVKAHALKGQSCVHRRLIVGDGFVTITKGESIRSFFEYAEEAEEEDEDD VVDRDSNDPDGDIAHPQKHAKSPELAREFLLDAAAVIFKEQFWSALSPHARHELLRLDKQTLIE HARKNLYCSRCNGLLLESFTQIVMYGKSLLHEGSCEPRIQEVEAEVQEPSVHPWGGLSTTKDGI LTLLDCFINAKSLHVIQNVFDNARAREREREMLYPDACGGGGRGWISPVIPNYGRGHGTRDTCA LHTAHLSCDTLVDFWSALGEETRSSLLRMKEEDFIERLMHRFDSKRFCRDCRRNVIREFKELKE LKRMRREPRCTSWFCVADTTFKCEVFEDAILVDWHQSLLEQDGIYHHFEWAIGTDEGKSDILNF ENVGMNGQVHRKGLDLDHFEDYFVTLRAWRLDGRCTEFCVKAHALKGQSCVHRRLIVGDGFVTI TKGESIRSFFEYAEEAEEEDEDDVVDRDSNDPDGDIAHPQKHAKSPELAREFLLDAAAVIFKEQ FWSALSPHARHELLRLDKQTLIEHARKNLYCSRCNGLLLESFTQIVMYGKSLLHEGSCEPRIQE VEAEVQEPSVHPWGGLSTTKDGILTLLDCFINAKSLHVIQNVFDNARAREREREMLYPDACGGG GRGWISPVIPNYGRGHGTRDTCALHTAHLSCDTLVDFWSALGEETRSSLLRMKEEDFIERLMHR FDSKRFCRDCRRNVIREFKELKELKRMRREPRCTSWFCVADTTFKCEVFEDAILVDWHQSLLEQ DGIYHHFEWAIGTDEGKSDILNFENVGMNGQVHRKGLDLDHFEDYFVTLRAWRLDGRCTEFCVK AHALKGQSCVHRRLIVGDGFVTITKGESIRSFFEYAEEAEEEDEDDVVDRDSNDPDGDIAHPQK HAKSPELAREFLLDAAAVIFKEQFWSALSPHARHELLRLDKQTLIEHARKNLYCSRCNGLLLES FTQIVMYGKSLLHEGSCEPRIQEVEAEVQEPSVHPWGGLSTTKDGILTLLDCFINAKSLHVIQN VFDNARAREREREMLYPDACGGGGRGWISPVIPNYGRGHGTRDTCALHTAHLSCDTLVDFWSAL GEETRSSLLRMKEEDFIERLMHRFDSKRFCRDCRRNVIREFKELKELKRMRREPRCTSWFCVAD TTFKCEVFEDAILVDWHQSLLEQDGIYHHFEWAIGTDEGKSDILNFENVGMNGQVHRKGLDLDH FEDYFVTLRAWRLDGRCTEFCVKAHALKGQSCVHRRLIVGDGFVTITKGESIRSFFEYAEEAEE EDEDDVVDRDSNDPDGDIAHPQKHAKSPELAREFLLDAAAVIFKEQ(-) MTLMVISLIHRSMPRALNLQENFSWMLLLLSSKNSFGVPCHLMHDMSC*(-)
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 Zm00001d014340_circ_g.5

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