Plant Circular RNA Database

Detail information of Zm00001d017808_circ_g.1

			
						 General Information
					
						CircRNA Name
						Zm00001d017808_circ_g.1
					
						ID in PlantcircBase
						zma_circ_008789
					
						Alias
						zma_circ_0001983
					
						Organism
						
							Zea mays						
					
						Position
						
							chr5: 207410864-207417254  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Zm00001d017808						
					
						Parent gene annotation
						
							ATP-dependent DNA helicase homolog RECG chloroplastic
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						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  
						
							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
						Zm00001d017808_T002:7
Zm00001d017808_T001:7
Zm00001d017808_T008:7
Zm00001d017808_T006:7
Zm00001d017808_T011:3
Zm00001d017808_T004:7
Zm00001d017808_T010:6
Zm00001d017808_T009:7
Zm00001d017808_T003:6

General Information
CircRNA Name	Zm00001d017808_circ_g.1
ID in PlantcircBase	zma_circ_008789
Alias	zma_circ_0001983
Organism	Zea mays
Position	chr5: 207410864-207417254 JBrowse»
Reference genome	AGPv4.38
Type	ue-circRNA
Identification method	find_circ
Parent gene	Zm00001d017808
Parent gene annotation	ATP-dependent DNA helicase homolog RECG chloroplastic
Parent gene strand	+
Alternative splicing	NA
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	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	Zm00001d017808_T002:7 Zm00001d017808_T001:7 Zm00001d017808_T008:7 Zm00001d017808_T006:7 Zm00001d017808_T011:3 Zm00001d017808_T004:7 Zm00001d017808_T010:6 Zm00001d017808_T009:7 Zm00001d017808_T003:6

			
						 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  
						
							GAGGGCTCTTCCTTATTGGCTTACTCCTAGTCAGTTGGATGCTGTTCAAGAGATTATATGGGAT
CTCAGGAGACCAGTTCCCATGAACAGACTCTTGCAGgtgtctgttttggtgggttacagtaatc
cacaagatttagttgagaaacaaagagcccctggggaatcttctgcagagttgattagtgcctt
gaaagaaa

									
								

					

						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: 1410
Transcript exons: 207410864-207411358,207411444-207411556,207413218-207413
449,207413958-207414121,207414517-207414598,207416505-20
7416594,207417021-207417254
GTGTCTGTTTTGGTGGGTTACAGTAATCCACAAGATTTAGTTGAGAAACAAAGAGCCCCTGGGG
AATCTTCTGCAGAGTTGATTAGTGCCTTGAAAGAAATCGATTTCCCAGAAATTACTGCAAAGTT
TCCATGCATAAAAGTTGGTGATGCATCACCTGTTGAACTGTATGAGGATTCTACTAACATGAAG
TTTAAAGAAGCTGCACTTTCTGAAAAGCTCACAAATTTCATCCAAGGCTCAGCTCGAAATTTGG
AGTCAGCTTATGAATTCCATAATGACTGTCATCCATTGAATCAAACACCCACAACTGCAGGTGA
TCTTTCAATCAGTGAAGAGATCCCTCTCATTGAACCAATAGTTGATACGAAGTCCCCCGAGTCA
TTGTCAGATGCTATAACCTCTGACAATAGTATACTGGATAAAAGTATAAGGTGCTTGCCTGGAA
CAACTAGTAGGCAATATCGCCAGCTAGAGGATGGTGGTTTCCATACGGTCCGCAAATTATTGCA
GCATTTTCCTCGGACTTATGCAGATCTGCAAAACCCTCAAGGCCCCATAGAATATGGGCAGTAT
ATTATGTTATCTGGTACTGTTATATCTTCCAGGGGAATCAAGGTTAAGTCCACTTTAGGTCTTC
TTGAGGTGGTTGTTGGTTGTTCCATAATCGAGTCTGAATTGAGCTCTTCAGTTGAGAGTAGTCA
CTCTGGAGCAGAGCAAAAGAGAATTCACTTGCACCTCAACAGATTTTTCAGTGGCGCACGTTTT
TCTTCCCAACATTTTCTTAACTTAATGTCAGCAAAGCACAAAGAAGGGGATCTTGTTTATGTTA
GTGGTAAGATAAAAAAGGTGCTTGCTAATGGCCATTATGAGTTGAAGGAGTACACAATTGACGC
TATTGAAGGAGAAGGGGAACACAGCACTATGCTTGCTAGGAAACCACACCCTATATACCCGTCG
AAAGCGGGATTAAAACCTAGTCTGCTTGGCCTTTCAATCTCTAGGGCCTTGAAGATATTGAGCC
CAGATGTTGATCCAGTGCCTCCCGATGTTCTCGTTGAATTCAACTTGCCTAATCTCTTTGATGC
TTACATGGGAATTCACAAACCTAAGGATCGATCTGAAGCTGATTTTGCTCGAAGAAGGCTTATA
TTTGATGATTTCTTTTACCTCCAGTTAGGAAGACTATTTCAAATGCTTGAAGCAGTTGGTACGC
GGGTTGAGAAGGAGGAATTGTTATACAAGTGCAAAAGTCATGAGCTGAATACTGTTGGTGTAGA
TGATTGGTCTCCTCTTACAAAGAAATTGTTGAGGGCTCTTCCTTATTGGCTTACTCCTAGTCAG
TTGGATGCTGTTCAAGAGATTATATGGGATCTCAGGAGACCAGTTCCCATGAACAGACTCTTGC
AG
						
					

						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	GAGGGCTCTTCCTTATTGGCTTACTCCTAGTCAGTTGGATGCTGTTCAAGAGATTATATGGGAT CTCAGGAGACCAGTTCCCATGAACAGACTCTTGCAGgtgtctgttttggtgggttacagtaatc cacaagatttagttgagaaacaaagagcccctggggaatcttctgcagagttgattagtgcctt gaaagaaa
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: 1410 Transcript exons: 207410864-207411358,207411444-207411556,207413218-207413 449,207413958-207414121,207414517-207414598,207416505-20 7416594,207417021-207417254 GTGTCTGTTTTGGTGGGTTACAGTAATCCACAAGATTTAGTTGAGAAACAAAGAGCCCCTGGGG AATCTTCTGCAGAGTTGATTAGTGCCTTGAAAGAAATCGATTTCCCAGAAATTACTGCAAAGTT TCCATGCATAAAAGTTGGTGATGCATCACCTGTTGAACTGTATGAGGATTCTACTAACATGAAG TTTAAAGAAGCTGCACTTTCTGAAAAGCTCACAAATTTCATCCAAGGCTCAGCTCGAAATTTGG AGTCAGCTTATGAATTCCATAATGACTGTCATCCATTGAATCAAACACCCACAACTGCAGGTGA TCTTTCAATCAGTGAAGAGATCCCTCTCATTGAACCAATAGTTGATACGAAGTCCCCCGAGTCA TTGTCAGATGCTATAACCTCTGACAATAGTATACTGGATAAAAGTATAAGGTGCTTGCCTGGAA CAACTAGTAGGCAATATCGCCAGCTAGAGGATGGTGGTTTCCATACGGTCCGCAAATTATTGCA GCATTTTCCTCGGACTTATGCAGATCTGCAAAACCCTCAAGGCCCCATAGAATATGGGCAGTAT ATTATGTTATCTGGTACTGTTATATCTTCCAGGGGAATCAAGGTTAAGTCCACTTTAGGTCTTC TTGAGGTGGTTGTTGGTTGTTCCATAATCGAGTCTGAATTGAGCTCTTCAGTTGAGAGTAGTCA CTCTGGAGCAGAGCAAAAGAGAATTCACTTGCACCTCAACAGATTTTTCAGTGGCGCACGTTTT TCTTCCCAACATTTTCTTAACTTAATGTCAGCAAAGCACAAAGAAGGGGATCTTGTTTATGTTA GTGGTAAGATAAAAAAGGTGCTTGCTAATGGCCATTATGAGTTGAAGGAGTACACAATTGACGC TATTGAAGGAGAAGGGGAACACAGCACTATGCTTGCTAGGAAACCACACCCTATATACCCGTCG AAAGCGGGATTAAAACCTAGTCTGCTTGGCCTTTCAATCTCTAGGGCCTTGAAGATATTGAGCC CAGATGTTGATCCAGTGCCTCCCGATGTTCTCGTTGAATTCAACTTGCCTAATCTCTTTGATGC TTACATGGGAATTCACAAACCTAAGGATCGATCTGAAGCTGATTTTGCTCGAAGAAGGCTTATA TTTGATGATTTCTTTTACCTCCAGTTAGGAAGACTATTTCAAATGCTTGAAGCAGTTGGTACGC GGGTTGAGAAGGAGGAATTGTTATACAAGTGCAAAAGTCATGAGCTGAATACTGTTGGTGTAGA TGATTGGTCTCCTCTTACAAAGAAATTGTTGAGGGCTCTTCCTTATTGGCTTACTCCTAGTCAG TTGGATGCTGTTCAAGAGATTATATGGGATCTCAGGAGACCAGTTCCCATGAACAGACTCTTGC AG
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
						0.056637373

Conservation Information
Conserved circRNAs	NA
PMCS	0.056637373

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							207411051-207417251(+)
207417213-207410886(+)
						
					

						Potential amino acid sequence
						
							MKFKEAALSEKLTNFIQGSARNLESAYEFHNDCHPLNQTPTTAGDLSISEEIPLIEPIVDTKSP
ESLSDAITSDNSILDKSIRCLPGTTSRQYRQLEDGGFHTVRKLLQHFPRTYADLQNPQGPIEYG
QYIMLSGTVISSRGIKVKSTLGLLEVVVGCSIIESELSSSVESSHSGAEQKRIHLHLNRFFSGA
RFSSQHFLNLMSAKHKEGDLVYVSGKIKKVLANGHYELKEYTIDAIEGEGEHSTMLARKPHPIY
PSKAGLKPSLLGLSISRALKILSPDVDPVPPDVLVEFNLPNLFDAYMGIHKPKDRSEADFARRR
LIFDDFFYLQLGRLFQMLEAVGTRVEKEELLYKCKSHELNTVGVDDWSPLTKKLLRALPYWLTP
SQLDAVQEIIWDLRRPVPMNRLLQVSVLVGYSNPQDLVEKQRAPGESSAELISALKEIDFPEIT
AKFPCIKVGDASPVELYEDSTNMKFKEAALSEKLTNFIQGSARNLESAYEFHNDCHPLNQTPTT
AGDLSISEEIPLIEPIVDTKSPESLSDAITSDNSILDKSIRCLPGTTSRQYRQLEDGGFHTVRK
LLQHFPRTYADLQNPQGPIEYGQYIMLSGTVISSRGIKVKSTLGLLEVVVGCSIIESELSSSVE
SSHSGAEQKRIHLHLNRFFSGARFSSQHFLNLMSAKHKEGDLVYVSGKIKKVLANGHYELKEYT
IDAIEGEGEHSTMLARKPHPIYPSKAGLKPSLLGLSISRALKILSPDVDPVPPDVLVEFNLPNL
FDAYMGIHKPKDRSEADFARRRLIFDDFFYLQLGRLFQMLEAVGTRVEKEELLYKCKSHELNTV
GVDDWSPLTKKLLRALPYWLTPSQLDAVQEIIWDLRRPVPMNRLLQVSVLVGYSNPQDLVEKQR
APGESSAELISALKEIDFPEITAKFPCIKVGDASPVELYEDSTNMKFKEAALSEKLTNFIQGSA
RNLESAYEFHNDCHPLNQTPTTAGDLSISEEIPLIEPIVDTKSPESLSDAITSDNSILDKSIRC
LPGTTSRQYRQLEDGGFHTVRKLLQHFPRTYADLQNPQGPIEYGQYIMLSGTVISSRGIKVKST
LGLLEVVVGCSIIESELSSSVESSHSGAEQKRIHLHLNRFFSGARFSSQHFLNLMSAKHKEGDL
VYVSGKIKKVLANGHYELKEYTIDAIEGEGEHSTMLARKPHPIYPSKAGLKPSLLGLSISRALK
ILSPDVDPVPPDVLVEFNLPNLFDAYMGIHKPKDRSEADFARRRLIFDDFFYLQLGRLFQMLEA
VGTRVEKEELLYKCKSHELNTVGVDDWSPLTKKLLRALPYWLTPSQLDAVQEIIWDLRRPVPMN
RLLQVSVLVGYSNPQDLVEKQRAPGESSAELISALKEIDFPEITAKFPCIKVGDASPVELYEDS
TNMKFKEAALSEKLTNFIQGSARNLESAYEFHNDCHPLNQTPTTAGDLSISEEIPLIEPIVDTK
SPESLSDAITSDNSILDKSIRCLPGTTSRQYRQLEDGGFHTVRKLLQHFPRTYADLQNPQGPIE
YGQYIMLSGTVISSRGIKVKSTLGLLEVVVGCSIIESELSSSVESSHSGAEQKRIHLHLNRFFS
GARFSSQHFLNLMSAKHKEGDLVYVSGKIKKVLANGHYELKEYTIDAIEGEGEHSTMLARKPHP
IYPSKAGLKPSLLGLSISRALKILSPDVDPVPPDVLVEFNLPNLFDAYMGIHKPKDRSEADFAR
RRLIFDDFFYLQLGRLFQMLEAVGTRVEKEELLYKCKSHELNTVGVDDWSPLTKKLLRALPYWL
TPSQLDAVQEIIWDLRRPVPMNRLLQ(+)
MGSQETSSHEQTLAGVCFGGLQ*(+)
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	207411051-207417251(+) 207417213-207410886(+)
Potential amino acid sequence	MKFKEAALSEKLTNFIQGSARNLESAYEFHNDCHPLNQTPTTAGDLSISEEIPLIEPIVDTKSP ESLSDAITSDNSILDKSIRCLPGTTSRQYRQLEDGGFHTVRKLLQHFPRTYADLQNPQGPIEYG QYIMLSGTVISSRGIKVKSTLGLLEVVVGCSIIESELSSSVESSHSGAEQKRIHLHLNRFFSGA RFSSQHFLNLMSAKHKEGDLVYVSGKIKKVLANGHYELKEYTIDAIEGEGEHSTMLARKPHPIY PSKAGLKPSLLGLSISRALKILSPDVDPVPPDVLVEFNLPNLFDAYMGIHKPKDRSEADFARRR LIFDDFFYLQLGRLFQMLEAVGTRVEKEELLYKCKSHELNTVGVDDWSPLTKKLLRALPYWLTP SQLDAVQEIIWDLRRPVPMNRLLQVSVLVGYSNPQDLVEKQRAPGESSAELISALKEIDFPEIT AKFPCIKVGDASPVELYEDSTNMKFKEAALSEKLTNFIQGSARNLESAYEFHNDCHPLNQTPTT AGDLSISEEIPLIEPIVDTKSPESLSDAITSDNSILDKSIRCLPGTTSRQYRQLEDGGFHTVRK LLQHFPRTYADLQNPQGPIEYGQYIMLSGTVISSRGIKVKSTLGLLEVVVGCSIIESELSSSVE SSHSGAEQKRIHLHLNRFFSGARFSSQHFLNLMSAKHKEGDLVYVSGKIKKVLANGHYELKEYT IDAIEGEGEHSTMLARKPHPIYPSKAGLKPSLLGLSISRALKILSPDVDPVPPDVLVEFNLPNL FDAYMGIHKPKDRSEADFARRRLIFDDFFYLQLGRLFQMLEAVGTRVEKEELLYKCKSHELNTV GVDDWSPLTKKLLRALPYWLTPSQLDAVQEIIWDLRRPVPMNRLLQVSVLVGYSNPQDLVEKQR APGESSAELISALKEIDFPEITAKFPCIKVGDASPVELYEDSTNMKFKEAALSEKLTNFIQGSA RNLESAYEFHNDCHPLNQTPTTAGDLSISEEIPLIEPIVDTKSPESLSDAITSDNSILDKSIRC LPGTTSRQYRQLEDGGFHTVRKLLQHFPRTYADLQNPQGPIEYGQYIMLSGTVISSRGIKVKST LGLLEVVVGCSIIESELSSSVESSHSGAEQKRIHLHLNRFFSGARFSSQHFLNLMSAKHKEGDL VYVSGKIKKVLANGHYELKEYTIDAIEGEGEHSTMLARKPHPIYPSKAGLKPSLLGLSISRALK ILSPDVDPVPPDVLVEFNLPNLFDAYMGIHKPKDRSEADFARRRLIFDDFFYLQLGRLFQMLEA VGTRVEKEELLYKCKSHELNTVGVDDWSPLTKKLLRALPYWLTPSQLDAVQEIIWDLRRPVPMN RLLQVSVLVGYSNPQDLVEKQRAPGESSAELISALKEIDFPEITAKFPCIKVGDASPVELYEDS TNMKFKEAALSEKLTNFIQGSARNLESAYEFHNDCHPLNQTPTTAGDLSISEEIPLIEPIVDTK SPESLSDAITSDNSILDKSIRCLPGTTSRQYRQLEDGGFHTVRKLLQHFPRTYADLQNPQGPIE YGQYIMLSGTVISSRGIKVKSTLGLLEVVVGCSIIESELSSSVESSHSGAEQKRIHLHLNRFFS GARFSSQHFLNLMSAKHKEGDLVYVSGKIKKVLANGHYELKEYTIDAIEGEGEHSTMLARKPHP IYPSKAGLKPSLLGLSISRALKILSPDVDPVPPDVLVEFNLPNLFDAYMGIHKPKDRSEADFAR RRLIFDDFFYLQLGRLFQMLEAVGTRVEKEELLYKCKSHELNTVGVDDWSPLTKKLLRALPYWL TPSQLDAVQEIIWDLRRPVPMNRLLQ(+) MGSQETSSHEQTLAGVCFGGLQ*(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ma et al., 2021b

circRNA

Detail information of Zm00001d017808_circ_g.1

Address

Any questions?

Supported by