Plant Circular RNA Database

Detail information of Zm00001d004383_circ_g.5

			
						 General Information
					
						CircRNA Name
						Zm00001d004383_circ_g.5
					
						ID in PlantcircBase
						zma_circ_007241
					
						Alias
						Zm02circ00071, GRMZM2G149708_C1
					
						Organism
						
							Zea mays						
					
						Position
						
							chr2: 107700386-107706515  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRI2
					
						Parent gene
						
							Zm00001d004383						
					
						Parent gene annotation
						
							 leunig-related6
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Zm00001d004383_circ_g.2 Zm00001d004383_circ_g.3 Zm00001d004383_circ_g.4 Zm00001d004383_circ_g.6 						
					
						Support reads
						NA
					
						Tissues
						leaf, endosperm
					
						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
						Zm00001d004383_T007:3
Zm00001d004383_T004:7
Zm00001d004383_T002:7
Zm00001d004383_T003:7
Zm00001d004383_T001:7
Zm00001d004383_T005:7
Zm00001d004383_T008:2

General Information
CircRNA Name	Zm00001d004383_circ_g.5
ID in PlantcircBase	zma_circ_007241
Alias	Zm02circ00071, GRMZM2G149708_C1
Organism	Zea mays
Position	chr2: 107700386-107706515 JBrowse»
Reference genome	AGPv4.38
Type	ue-circRNA
Identification method	CIRI2
Parent gene	Zm00001d004383
Parent gene annotation	leunig-related6
Parent gene strand	+
Alternative splicing	Zm00001d004383_circ_g.2 Zm00001d004383_circ_g.3 Zm00001d004383_circ_g.4 Zm00001d004383_circ_g.6
Support reads	NA
Tissues	leaf, endosperm
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	Zm00001d004383_T007:3 Zm00001d004383_T004:7 Zm00001d004383_T002:7 Zm00001d004383_T003:7 Zm00001d004383_T001:7 Zm00001d004383_T005:7 Zm00001d004383_T008:2

			
						 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  
						
							CCATAAGGTCTAACTGTATTTTGCAGGAAATATACACTATTCGGTGGAGCCCAACAGGCCCAGG
AACAAACAATCCTAATCAGCAGTTGCTTTTGGCTAGatcaggagactcaactgctagaatctgg
acaattccatatggtccatgtggttccgacatgcaaccatattctcctggtgttcatgttttga
aacatttt

						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: 699
Transcript exons: 107700386-107700536,107700766-107700829,107701146-107701
304,107701413-107701534,107704035-107704109,107706313-10
7706366,107706442-107706515
ATCAGGAGACTCAACTGCTAGAATCTGGACAATTCCATATGGTCCATGTGGTTCCGACATGCAA
CCATATTCTCCTGGTGTTCATGTTTTGAAACATTTTAAAGGTCGGACCAATGAAAAGAGCAAGG
ATGTCACCACGCTTGACTGGAATGGTGAAGGTACACTACTCGCTACGGGCTCCTACGATGGACA
GGCAAGAATATGGAGTAGAGATGGAGACCTGAAGCAGACACTGTTCAAACATAAGGGACCCATA
TTTTCATTGAAATGGAATAAGAAAGGAGATTTTCTCCTAAGTGGAAGTGTTGATAAAACTGCTA
TTGTTTGGGATACAAAGACATGGGAATGCAAGCAGCAGTTTGAATTTCATTCAGCTCCAACACT
AGATGTTGATTGGAGAAATAATAACTCCTTTGCAACATGTTCAACCGATAACATGATCTATGTT
TGCAAGATTGGGGAACAGCGTCCAATTAAAGCATTCAGTGGTCATCAGAGTGAAGTTAATGCTA
TAAAGTGGGATCCGACTGGTTCTTTTTTGGCTTCATGTTCTGATGATTGGACAGCAAAGATATG
GAGTATGAAACAAGACAAATGTATATTTGATTTCAAGGAGCATACCAAGGAAATATACACTATT
CGGTGGAGCCCAACAGGCCCAGGAACAAACAATCCTAATCAGCAGTTGCTTTTGGCTAG
						
						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	CCATAAGGTCTAACTGTATTTTGCAGGAAATATACACTATTCGGTGGAGCCCAACAGGCCCAGG AACAAACAATCCTAATCAGCAGTTGCTTTTGGCTAGatcaggagactcaactgctagaatctgg acaattccatatggtccatgtggttccgacatgcaaccatattctcctggtgttcatgttttga aacatttt
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: 699 Transcript exons: 107700386-107700536,107700766-107700829,107701146-107701 304,107701413-107701534,107704035-107704109,107706313-10 7706366,107706442-107706515 ATCAGGAGACTCAACTGCTAGAATCTGGACAATTCCATATGGTCCATGTGGTTCCGACATGCAA CCATATTCTCCTGGTGTTCATGTTTTGAAACATTTTAAAGGTCGGACCAATGAAAAGAGCAAGG ATGTCACCACGCTTGACTGGAATGGTGAAGGTACACTACTCGCTACGGGCTCCTACGATGGACA GGCAAGAATATGGAGTAGAGATGGAGACCTGAAGCAGACACTGTTCAAACATAAGGGACCCATA TTTTCATTGAAATGGAATAAGAAAGGAGATTTTCTCCTAAGTGGAAGTGTTGATAAAACTGCTA TTGTTTGGGATACAAAGACATGGGAATGCAAGCAGCAGTTTGAATTTCATTCAGCTCCAACACT AGATGTTGATTGGAGAAATAATAACTCCTTTGCAACATGTTCAACCGATAACATGATCTATGTT TGCAAGATTGGGGAACAGCGTCCAATTAAAGCATTCAGTGGTCATCAGAGTGAAGTTAATGCTA TAAAGTGGGATCCGACTGGTTCTTTTTTGGCTTCATGTTCTGATGATTGGACAGCAAAGATATG GAGTATGAAACAAGACAAATGTATATTTGATTTCAAGGAGCATACCAAGGAAATATACACTATT CGGTGGAGCCCAACAGGCCCAGGAACAAACAATCCTAATCAGCAGTTGCTTTTGGCTAG
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
						0.074445699

Conservation Information
Conserved circRNAs	NA
PMCS	0.074445699

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							107700445-107706512(+)
107700447-107706497(-)
						
						Potential amino acid sequence
						
							MQPYSPGVHVLKHFKGRTNEKSKDVTTLDWNGEGTLLATGSYDGQARIWSRDGDLKQTLFKHKG
PIFSLKWNKKGDFLLSGSVDKTAIVWDTKTWECKQQFEFHSAPTLDVDWRNNNSFATCSTDNMI
YVCKIGEQRPIKAFSGHQSEVNAIKWDPTGSFLASCSDDWTAKIWSMKQDKCIFDFKEHTKEIY
TIRWSPTGPGTNNPNQQLLLARSGDSTARIWTIPYGPCGSDMQPYSPGVHVLKHFKGRTNEKSK
DVTTLDWNGEGTLLATGSYDGQARIWSRDGDLKQTLFKHKGPIFSLKWNKKGDFLLSGSVDKTA
IVWDTKTWECKQQFEFHSAPTLDVDWRNNNSFATCSTDNMIYVCKIGEQRPIKAFSGHQSEVNA
IKWDPTGSFLASCSDDWTAKIWSMKQDKCIFDFKEHTKEIYTIRWSPTGPGTNNPNQQLLLARS
GDSTARIWTIPYGPCGSDMQPYSPGVHVLKHFKGRTNEKSKDVTTLDWNGEGTLLATGSYDGQA
RIWSRDGDLKQTLFKHKGPIFSLKWNKKGDFLLSGSVDKTAIVWDTKTWECKQQFEFHSAPTLD
VDWRNNNSFATCSTDNMIYVCKIGEQRPIKAFSGHQSEVNAIKWDPTGSFLASCSDDWTAKIWS
MKQDKCIFDFKEHTKEIYTIRWSPTGPGTNNPNQQLLLARSGDSTARIWTIPYGPCGSDMQPYS
PGVHVLKHFKGRTNEKSKDVTTLDWNGEGTLLATGSYDGQARIWSRDGDLKQTLFKHKGPIFSL
KWNKKGDFLLSGSVDKTAIVWDTKTWECKQQFEFHSAPTLDVDWRNNNSFATCSTDNMIYVCKI
GEQRPIKAFSGHQSEVNAIKWDPTGSFLASCSDDWTAKIWSMKQDKCIFDFKEHTKEIYTIRWS
PTGPGTNNPNQQLLLA(+)
MSEPHGPYGIVQILAVESPDLAKSNC*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						responsive to drought stress

Functional Information
Coding potential	Y
Potential coding position	107700445-107706512(+) 107700447-107706497(-)
Potential amino acid sequence	MQPYSPGVHVLKHFKGRTNEKSKDVTTLDWNGEGTLLATGSYDGQARIWSRDGDLKQTLFKHKG PIFSLKWNKKGDFLLSGSVDKTAIVWDTKTWECKQQFEFHSAPTLDVDWRNNNSFATCSTDNMI YVCKIGEQRPIKAFSGHQSEVNAIKWDPTGSFLASCSDDWTAKIWSMKQDKCIFDFKEHTKEIY TIRWSPTGPGTNNPNQQLLLARSGDSTARIWTIPYGPCGSDMQPYSPGVHVLKHFKGRTNEKSK DVTTLDWNGEGTLLATGSYDGQARIWSRDGDLKQTLFKHKGPIFSLKWNKKGDFLLSGSVDKTA IVWDTKTWECKQQFEFHSAPTLDVDWRNNNSFATCSTDNMIYVCKIGEQRPIKAFSGHQSEVNA IKWDPTGSFLASCSDDWTAKIWSMKQDKCIFDFKEHTKEIYTIRWSPTGPGTNNPNQQLLLARS GDSTARIWTIPYGPCGSDMQPYSPGVHVLKHFKGRTNEKSKDVTTLDWNGEGTLLATGSYDGQA RIWSRDGDLKQTLFKHKGPIFSLKWNKKGDFLLSGSVDKTAIVWDTKTWECKQQFEFHSAPTLD VDWRNNNSFATCSTDNMIYVCKIGEQRPIKAFSGHQSEVNAIKWDPTGSFLASCSDDWTAKIWS MKQDKCIFDFKEHTKEIYTIRWSPTGPGTNNPNQQLLLARSGDSTARIWTIPYGPCGSDMQPYS PGVHVLKHFKGRTNEKSKDVTTLDWNGEGTLLATGSYDGQARIWSRDGDLKQTLFKHKGPIFSL KWNKKGDFLLSGSVDKTAIVWDTKTWECKQQFEFHSAPTLDVDWRNNNSFATCSTDNMIYVCKI GEQRPIKAFSGHQSEVNAIKWDPTGSFLASCSDDWTAKIWSMKQDKCIFDFKEHTKEIYTIRWS PTGPGTNNPNQQLLLA(+) MSEPHGPYGIVQILAVESPDLAKSNC*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	responsive to drought stress

			
						 Other Information
					
						References
						Han et al., 2020;Zhang et al., 2019

circRNA

Detail information of Zm00001d004383_circ_g.5

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