Plant Circular RNA Database

Detail information of Zm00001d029272_circ_g.1

			
						 General Information
					
						CircRNA Name
						Zm00001d029272_circ_g.1
					
						ID in PlantcircBase
						zma_circ_006536
					
						Alias
						Zm01circ00069, ZmciR90
					
						Organism
						
							Zea mays						
					
						Position
						
							chr1: 64442563-64450669  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRI2
					
						Parent gene
						
							Zm00001d029272						
					
						Parent gene annotation
						
							Peptidyl-prolyl cis-trans isomerase PASTICCINO1
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						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
						Zm00001d029272_T002:3
Zm00001d029272_T009:3
Zm00001d029272_T007:3
Zm00001d029272_T006:3
Zm00001d029272_T001:3
Zm00001d029272_T005:3
Zm00001d029272_T010:3
Zm00001d029272_T004:3
Zm00001d029272_T008:3
Zm00001d029272_T012:3
Zm00001d029272_T011:3
Zm00001d029272_T003:3

General Information
CircRNA Name	Zm00001d029272_circ_g.1
ID in PlantcircBase	zma_circ_006536
Alias	Zm01circ00069, ZmciR90
Organism	Zea mays
Position	chr1: 64442563-64450669 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	CIRI2
Parent gene	Zm00001d029272
Parent gene annotation	Peptidyl-prolyl cis-trans isomerase PASTICCINO1
Parent gene strand	+
Alternative splicing	NA
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	Zm00001d029272_T002:3 Zm00001d029272_T009:3 Zm00001d029272_T007:3 Zm00001d029272_T006:3 Zm00001d029272_T001:3 Zm00001d029272_T005:3 Zm00001d029272_T010:3 Zm00001d029272_T004:3 Zm00001d029272_T008:3 Zm00001d029272_T012:3 Zm00001d029272_T011:3 Zm00001d029272_T003:3

			
						 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  
						
							TTTTGTTAGCAATACTTATTTGACGAAGTCCTCACTAATGCCAGAGCTTGAAGGCCTTGAAGAA
GTTCATTTTTACATTGAATTGGTTCAGTTTATCCAGatagttgaagaaggcaagggatgggaaa
cacctagagagccatatgaaataacagcacggtaaatacttacaattcaaatttgtaaaaaaat
attcatct

						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: 300
Transcript exons: 64442563-64442621,64449809-64449890,64450511-64450669
ATAGTTGAAGAAGGCAAGGGATGGGAAACACCTAGAGAGCCATATGAAATAACAGCACGGATAA
CTGTAAGAACAGCAGATGGAAAAGAAATTATTCCAAGTAAAGAAGAGGCATATTTCTTTACTAT
TGGTAAATCTGAGGTACCTAAAGGGCTTGAAATGGGCATTGGAACAATGGCTCGCAAGGAAAAG
GCAATTGTTTTTGTTAGCAATACTTATTTGACGAAGTCCTCACTAATGCCAGAGCTTGAAGGCC
TTGAAGAAGTTCATTTTTACATTGAATTGGTTCAGTTTATCCAG
						
						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	TTTTGTTAGCAATACTTATTTGACGAAGTCCTCACTAATGCCAGAGCTTGAAGGCCTTGAAGAA GTTCATTTTTACATTGAATTGGTTCAGTTTATCCAGatagttgaagaaggcaagggatgggaaa cacctagagagccatatgaaataacagcacggtaaatacttacaattcaaatttgtaaaaaaat attcatct
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: 300 Transcript exons: 64442563-64442621,64449809-64449890,64450511-64450669 ATAGTTGAAGAAGGCAAGGGATGGGAAACACCTAGAGAGCCATATGAAATAACAGCACGGATAA CTGTAAGAACAGCAGATGGAAAAGAAATTATTCCAAGTAAAGAAGAGGCATATTTCTTTACTAT TGGTAAATCTGAGGTACCTAAAGGGCTTGAAATGGGCATTGGAACAATGGCTCGCAAGGAAAAG GCAATTGTTTTTGTTAGCAATACTTATTTGACGAAGTCCTCACTAATGCCAGAGCTTGAAGGCC TTGAAGAAGTTCATTTTTACATTGAATTGGTTCAGTTTATCCAG
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
						0.071033833

Conservation Information
Conserved circRNAs	NA
PMCS	0.071033833

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							64450530-64450666(+)
64450538-64450659(-)
						
						Potential amino acid sequence
						
							MGIGTMARKEKAIVFVSNTYLTKSSLMPELEGLEEVHFYIELVQFIQIVEEGKGWETPREPYEI
TARITVRTADGKEIIPSKEEAYFFTIGKSEVPKGLEMGIGTMARKEKAIVFVSNTYLTKSSLMP
ELEGLEEVHFYIELVQFIQIVEEGKGWETPREPYEITARITVRTADGKEIIPSKEEAYFFTIGK
SEVPKGLEMGIGTMARKEKAIVFVSNTYLTKSSLMPELEGLEEVHFYIELVQFIQIVEEGKGWE
TPREPYEITARITVRTADGKEIIPSKEEAYFFTIGKSEVPKGLEMGIGTMARKEKAIVFVSNTY
LTKSSLMPELEGLEEVHFYIELVQFIQ(+)
MPISSPLGTSDLPIVKKYASSLLGIISFPSAVLTVIRAVISYGSLGVSHPLPSSTIWIN*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	64450530-64450666(+) 64450538-64450659(-)
Potential amino acid sequence	MGIGTMARKEKAIVFVSNTYLTKSSLMPELEGLEEVHFYIELVQFIQIVEEGKGWETPREPYEI TARITVRTADGKEIIPSKEEAYFFTIGKSEVPKGLEMGIGTMARKEKAIVFVSNTYLTKSSLMP ELEGLEEVHFYIELVQFIQIVEEGKGWETPREPYEITARITVRTADGKEIIPSKEEAYFFTIGK SEVPKGLEMGIGTMARKEKAIVFVSNTYLTKSSLMPELEGLEEVHFYIELVQFIQIVEEGKGWE TPREPYEITARITVRTADGKEIIPSKEEAYFFTIGKSEVPKGLEMGIGTMARKEKAIVFVSNTY LTKSSLMPELEGLEEVHFYIELVQFIQ(+) MPISSPLGTSDLPIVKKYASSLLGIISFPSAVLTVIRAVISYGSLGVSHPLPSSTIWIN*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

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

circRNA

Detail information of Zm00001d029272_circ_g.1

Address

Any questions?

Supported by