Plant Circular RNA Database

Detail information of Zm00001d037867_circ_g.7

			
						 General Information
					
						CircRNA Name
						Zm00001d037867_circ_g.7
					
						ID in PlantcircBase
						zma_circ_009073
					
						Alias
						Zm06circ00070
					
						Organism
						
							Zea mays						
					
						Position
						
							chr6: 140367937-140384054  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRI2
					
						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.5 Zm00001d037867_circ_g.6 Zm00001d037867_circ_g.8 Zm00001d037867_circ_g.9 						
					
						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
						Zm00001d037867_T029:8
Zm00001d037867_T031:8
Zm00001d037867_T001:8
Zm00001d037867_T005:8
Zm00001d037867_T022:8
Zm00001d037867_T003:8
Zm00001d037867_T026:8
Zm00001d037867_T008:8
Zm00001d037867_T013:8
Zm00001d037867_T007:8
Zm00001d037867_T021:8
Zm00001d037867_T015:8
Zm00001d037867_T030:8
Zm00001d037867_T028:8
Zm00001d037867_T009:8
Zm00001d037867_T002:8
Zm00001d037867_T004:8

General Information
CircRNA Name	Zm00001d037867_circ_g.7
ID in PlantcircBase	zma_circ_009073
Alias	Zm06circ00070
Organism	Zea mays
Position	chr6: 140367937-140384054 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	CIRI2
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.5 Zm00001d037867_circ_g.6 Zm00001d037867_circ_g.8 Zm00001d037867_circ_g.9
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	Zm00001d037867_T029:8 Zm00001d037867_T031:8 Zm00001d037867_T001:8 Zm00001d037867_T005:8 Zm00001d037867_T022:8 Zm00001d037867_T003:8 Zm00001d037867_T026:8 Zm00001d037867_T008:8 Zm00001d037867_T013:8 Zm00001d037867_T007:8 Zm00001d037867_T021:8 Zm00001d037867_T015:8 Zm00001d037867_T030:8 Zm00001d037867_T028:8 Zm00001d037867_T009:8 Zm00001d037867_T002:8 Zm00001d037867_T004:8

			
						 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  
						
							GTAGGAATTTTTTGTTTCTGGTGGAGATGGACTGCCTCGTGGAACTGTTGAAAACTTAGTCTCG
CGTGTACGTCCTGTAATAAATCTGATCAAGCAAGAGactgcagatcaattttttgcatttaagg
ttcctatgcgagatggagaattaaatagtctatgccgtggtcttgacaaggcattccaagttta
tacacagc

						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: 864
Transcript exons: 140367937-140368054,140368276-140368454,140372142-140372
223,140375966-140376073,140376158-140376264,140376697-14
0376774,140376855-140376950,140383959-140384054
ACTGCAGATCAATTTTTTGCATTTAAGGTTCCTATGCGAGATGGAGAATTAAATAGTCTATGCC
GTGGTCTTGACAAGGCATTCCAAGTTTATACACAGCTGGTTACTGCACCCCTAGTTGATAAAGA
AGATTTAGCTCCGCCTATTCCTGTTCTTACTCGATATAAAAAGGAGCTTGGAATCAAGGCTTTT
GTAAAAAAAGAGGTCCAAGAAGTTAGAACAGTTGATGAGAGGAAAGCTAGCGAAATTACTCAGC
TTACAATGCCAAAGCTTTGTGTTCGTCTTAACAGTCTATATTACGGTATCAGCCAGTTGAGTAA
GTTGGAGGACAGCATTAATGAGAGGTGGGCTCGGAAGAAAAGTGAAAACACTAACATCAGACGA
AAAAGTGAAAAGTCAAAGAGTGCCGTCCCTAATCAGAAGAATCAATTTGATGGCAGCAGAAAAG
AAATCAATACTGCTATTGATCGTCTCTGTGAATTTACTGGGACAAAGGTTATATTCTGGGACCT
GCAGCAGCCATTTGTTGAGAATTTATACAGAAATGGTGTTGCTCAAGCTCGATTGGACACCATA
ACTGAAGTGCTTGATTTGGTCCTTAATCAACTTTGTGATGTCATTGTGGAACAACTGAGGGATC
GTGTGGTTACAGGGCTTCTGCAAGCATGCCTGGATGGCTTCCTTCGTGTGATACTGGATGGAGG
TTCTACACGTGTCTTCTCTCCAAATGATGCAGCTTTATTGGAGGAAGATCTTGAAACCCTGAAG
GAATTTTTTGTTTCTGGTGGAGATGGACTGCCTCGTGGAACTGTTGAAAACTTAGTCTCGCGTG
TACGTCCTGTAATAAATCTGATCAAGCAAGAG
						
						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	GTAGGAATTTTTTGTTTCTGGTGGAGATGGACTGCCTCGTGGAACTGTTGAAAACTTAGTCTCG CGTGTACGTCCTGTAATAAATCTGATCAAGCAAGAGactgcagatcaattttttgcatttaagg ttcctatgcgagatggagaattaaatagtctatgccgtggtcttgacaaggcattccaagttta tacacagc
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: 864 Transcript exons: 140367937-140368054,140368276-140368454,140372142-140372 223,140375966-140376073,140376158-140376264,140376697-14 0376774,140376855-140376950,140383959-140384054 ACTGCAGATCAATTTTTTGCATTTAAGGTTCCTATGCGAGATGGAGAATTAAATAGTCTATGCC GTGGTCTTGACAAGGCATTCCAAGTTTATACACAGCTGGTTACTGCACCCCTAGTTGATAAAGA AGATTTAGCTCCGCCTATTCCTGTTCTTACTCGATATAAAAAGGAGCTTGGAATCAAGGCTTTT GTAAAAAAAGAGGTCCAAGAAGTTAGAACAGTTGATGAGAGGAAAGCTAGCGAAATTACTCAGC TTACAATGCCAAAGCTTTGTGTTCGTCTTAACAGTCTATATTACGGTATCAGCCAGTTGAGTAA GTTGGAGGACAGCATTAATGAGAGGTGGGCTCGGAAGAAAAGTGAAAACACTAACATCAGACGA AAAAGTGAAAAGTCAAAGAGTGCCGTCCCTAATCAGAAGAATCAATTTGATGGCAGCAGAAAAG AAATCAATACTGCTATTGATCGTCTCTGTGAATTTACTGGGACAAAGGTTATATTCTGGGACCT GCAGCAGCCATTTGTTGAGAATTTATACAGAAATGGTGTTGCTCAAGCTCGATTGGACACCATA ACTGAAGTGCTTGATTTGGTCCTTAATCAACTTTGTGATGTCATTGTGGAACAACTGAGGGATC GTGTGGTTACAGGGCTTCTGCAAGCATGCCTGGATGGCTTCCTTCGTGTGATACTGGATGGAGG TTCTACACGTGTCTTCTCTCCAAATGATGCAGCTTTATTGGAGGAAGATCTTGAAACCCTGAAG GAATTTTTTGTTTCTGGTGGAGATGGACTGCCTCGTGGAACTGTTGAAAACTTAGTCTCGCGTG TACGTCCTGTAATAAATCTGATCAAGCAAGAG
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
						0.125431813

Conservation Information
Conserved circRNAs	NA
PMCS	0.125431813

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							140367971-140384051(+)
						
						Potential amino acid sequence
						
							MRDGELNSLCRGLDKAFQVYTQLVTAPLVDKEDLAPPIPVLTRYKKELGIKAFVKKEVQEVRTV
DERKASEITQLTMPKLCVRLNSLYYGISQLSKLEDSINERWARKKSENTNIRRKSEKSKSAVPN
QKNQFDGSRKEINTAIDRLCEFTGTKVIFWDLQQPFVENLYRNGVAQARLDTITEVLDLVLNQL
CDVIVEQLRDRVVTGLLQACLDGFLRVILDGGSTRVFSPNDAALLEEDLETLKEFFVSGGDGLP
RGTVENLVSRVRPVINLIKQETADQFFAFKVPMRDGELNSLCRGLDKAFQVYTQLVTAPLVDKE
DLAPPIPVLTRYKKELGIKAFVKKEVQEVRTVDERKASEITQLTMPKLCVRLNSLYYGISQLSK
LEDSINERWARKKSENTNIRRKSEKSKSAVPNQKNQFDGSRKEINTAIDRLCEFTGTKVIFWDL
QQPFVENLYRNGVAQARLDTITEVLDLVLNQLCDVIVEQLRDRVVTGLLQACLDGFLRVILDGG
STRVFSPNDAALLEEDLETLKEFFVSGGDGLPRGTVENLVSRVRPVINLIKQETADQFFAFKVP
MRDGELNSLCRGLDKAFQVYTQLVTAPLVDKEDLAPPIPVLTRYKKELGIKAFVKKEVQEVRTV
DERKASEITQLTMPKLCVRLNSLYYGISQLSKLEDSINERWARKKSENTNIRRKSEKSKSAVPN
QKNQFDGSRKEINTAIDRLCEFTGTKVIFWDLQQPFVENLYRNGVAQARLDTITEVLDLVLNQL
CDVIVEQLRDRVVTGLLQACLDGFLRVILDGGSTRVFSPNDAALLEEDLETLKEFFVSGGDGLP
RGTVENLVSRVRPVINLIKQETADQFFAFKVPMRDGELNSLCRGLDKAFQVYTQLVTAPLVDKE
DLAPPIPVLTRYKKELGIKAFVKKEVQEVRTVDERKASEITQLTMPKLCVRLNSLYYGISQLSK
LEDSINERWARKKSENTNIRRKSEKSKSAVPNQKNQFDGSRKEINTAIDRLCEFTGTKVIFWDL
QQPFVENLYRNGVAQARLDTITEVLDLVLNQLCDVIVEQLRDRVVTGLLQACLDGFLRVILDGG
STRVFSPNDAALLEEDLETLKEFFVSGGDGLPRGTVENLVSRVRPVINLIKQE(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	140367971-140384051(+)
Potential amino acid sequence	MRDGELNSLCRGLDKAFQVYTQLVTAPLVDKEDLAPPIPVLTRYKKELGIKAFVKKEVQEVRTV DERKASEITQLTMPKLCVRLNSLYYGISQLSKLEDSINERWARKKSENTNIRRKSEKSKSAVPN QKNQFDGSRKEINTAIDRLCEFTGTKVIFWDLQQPFVENLYRNGVAQARLDTITEVLDLVLNQL CDVIVEQLRDRVVTGLLQACLDGFLRVILDGGSTRVFSPNDAALLEEDLETLKEFFVSGGDGLP RGTVENLVSRVRPVINLIKQETADQFFAFKVPMRDGELNSLCRGLDKAFQVYTQLVTAPLVDKE DLAPPIPVLTRYKKELGIKAFVKKEVQEVRTVDERKASEITQLTMPKLCVRLNSLYYGISQLSK LEDSINERWARKKSENTNIRRKSEKSKSAVPNQKNQFDGSRKEINTAIDRLCEFTGTKVIFWDL QQPFVENLYRNGVAQARLDTITEVLDLVLNQLCDVIVEQLRDRVVTGLLQACLDGFLRVILDGG STRVFSPNDAALLEEDLETLKEFFVSGGDGLPRGTVENLVSRVRPVINLIKQETADQFFAFKVP MRDGELNSLCRGLDKAFQVYTQLVTAPLVDKEDLAPPIPVLTRYKKELGIKAFVKKEVQEVRTV DERKASEITQLTMPKLCVRLNSLYYGISQLSKLEDSINERWARKKSENTNIRRKSEKSKSAVPN QKNQFDGSRKEINTAIDRLCEFTGTKVIFWDLQQPFVENLYRNGVAQARLDTITEVLDLVLNQL CDVIVEQLRDRVVTGLLQACLDGFLRVILDGGSTRVFSPNDAALLEEDLETLKEFFVSGGDGLP RGTVENLVSRVRPVINLIKQETADQFFAFKVPMRDGELNSLCRGLDKAFQVYTQLVTAPLVDKE DLAPPIPVLTRYKKELGIKAFVKKEVQEVRTVDERKASEITQLTMPKLCVRLNSLYYGISQLSK LEDSINERWARKKSENTNIRRKSEKSKSAVPNQKNQFDGSRKEINTAIDRLCEFTGTKVIFWDL QQPFVENLYRNGVAQARLDTITEVLDLVLNQLCDVIVEQLRDRVVTGLLQACLDGFLRVILDGG STRVFSPNDAALLEEDLETLKEFFVSGGDGLPRGTVENLVSRVRPVINLIKQE(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Han et al., 2020

circRNA

Detail information of Zm00001d037867_circ_g.7

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