Plant Circular RNA Database

Detail information of Zm00001d038745_circ_g.2

			
						 General Information
					
						CircRNA Name
						Zm00001d038745_circ_g.2
					
						ID in PlantcircBase
						zma_circ_009154
					
						Alias
						zma_circ_0002408
					
						Organism
						
							Zea mays						
					
						Position
						
							chr6: 163761103-163770394  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Zm00001d038745						
					
						Parent gene annotation
						
							SNF1-related protein kinase catalytic subunit alpha KIN10
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Zm00001d038745_circ_g.1 						
					
						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
						Zm00001d038745_T003:10
Zm00001d038745_T005:9
Zm00001d038745_T006:9
Zm00001d038745_T002:10
Zm00001d038745_T008:7
Zm00001d038745_T007:10
Zm00001d038745_T004:10
Zm00001d038745_T001:10

General Information
CircRNA Name	Zm00001d038745_circ_g.2
ID in PlantcircBase	zma_circ_009154
Alias	zma_circ_0002408
Organism	Zea mays
Position	chr6: 163761103-163770394 JBrowse»
Reference genome	AGPv4.38
Type	ue-circRNA
Identification method	find_circ
Parent gene	Zm00001d038745
Parent gene annotation	SNF1-related protein kinase catalytic subunit alpha KIN10
Parent gene strand	+
Alternative splicing	Zm00001d038745_circ_g.1
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	Zm00001d038745_T003:10 Zm00001d038745_T005:9 Zm00001d038745_T006:9 Zm00001d038745_T002:10 Zm00001d038745_T008:7 Zm00001d038745_T007:10 Zm00001d038745_T004:10 Zm00001d038745_T001:10

			
						 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  
						
							GCCGGCCTCGCATTCGGCGCCGCGCCAGTCGCGCCTCCGCCTCCGTCGCCGCCTGCTCCGGCGA
GCGGGACCCAGCTCGCCTCTACTCCCCTACTGCGAGgtacacgatggagggagcgggaagagat
gccaaccctttgagcggttacagaattggcaaaaccctgggaattgggtcgttcggtaaagtga
agatcgcg

						Assembled circRNA sequence  
						
							NA
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
						
							NA						
					
						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	GCCGGCCTCGCATTCGGCGCCGCGCCAGTCGCGCCTCCGCCTCCGTCGCCGCCTGCTCCGGCGA GCGGGACCCAGCTCGCCTCTACTCCCCTACTGCGAGgtacacgatggagggagcgggaagagat gccaaccctttgagcggttacagaattggcaaaaccctgggaattgggtcgttcggtaaagtga agatcgcg
Assembled circRNA sequence	NA 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	NA
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
						0.529649761

Conservation Information
Conserved circRNAs	NA
PMCS	0.529649761

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							163761111-163770391(+)
163761225-163763465(-)
						
					

						Potential amino acid sequence
						
							MEGAGRDANPLSGYRIGKTLGIGSFGKVKIAEHILTGHKVAIKILNRKKIRSMDMEEKVKREIK
ILRLFMHPHIIRLYEIISGVEYCHRNMVAHRDLKPENLLLDSKCNVKIADFGLSNIMRDGHFLK
TSCGSPNYAAPEVISGKLYAGPEVDVWSCGVILYALLCGTLPFDDENIPNLFKKIKGGIYTLPS
HLSPSARDLIPRMLVVDPMKRITIREIREHVWFKIRLPRYLAVPPPDTAQQVKKVDEETLNDVI
KMGFDKNQLIESLQNRLQNEATVAYYLLLDNRLRTTSGYLGSEFQESMDSSLSQVIAETPTSAT
ELRQHGFSESPGSGLRQHFAAERKWALGLQSRAHPREIISEVLKALQELNVYWKKIGHYNMKCR
WSPGCLESMMHNSDSFSAESAIIETDVFMEKSTPTVKFEIQVDREIQLPSYCRGHGRTANPRSP
PKRPTIPSRPAARPDPSRPRIRRRASRASASVAACSGERDPARLYSPTARYTMEGAGRDANPLS
GYRIGKTLGIGSFGKVKIAEHILTGHKVAIKILNRKKIRSMDMEEKVKREIKILRLFMHPHIIR
LYEIISGVEYCHRNMVAHRDLKPENLLLDSKCNVKIADFGLSNIMRDGHFLKTSCGSPNYAAPE
VISGKLYAGPEVDVWSCGVILYALLCGTLPFDDENIPNLFKKIKGGIYTLPSHLSPSARDLIPR
MLVVDPMKRITIREIREHVWFKIRLPRYLAVPPPDTAQQVKKVDEETLNDVIKMGFDKNQLIES
LQNRLQNEATVAYYLLLDNRLRTTSGYLGSEFQESMDSSLSQVIAETPTSATELRQHGFSESPG
SGLRQHFAAERKWALGLQSRAHPREIISEVLKALQELNVYWKKIGHYNMKCRWSPGCLESMMHN
SDSFSAESAIIETDVFMEKSTPTVKFEIQVDREIQLPSYCRGHGRTANPRSPPKRPTIPSRPAA
RPDPSRPRIRRRASRASASVAACSGERDPARLYSPTARYTMEGAGRDANPLSGYRIGKTLGIGS
FGKVKIAEHILTGHKVAIKILNRKKIRSMDMEEKVKREIKILRLFMHPHIIRLYEIISGVEYCH
RNMVAHRDLKPENLLLDSKCNVKIADFGLSNIMRDGHFLKTSCGSPNYAAPEVISGKLYAGPEV
DVWSCGVILYALLCGTLPFDDENIPNLFKKIKGGIYTLPSHLSPSARDLIPRMLVVDPMKRITI
REIREHVWFKIRLPRYLAVPPPDTAQQVKKVDEETLNDVIKMGFDKNQLIESLQNRLQNEATVA
YYLLLDNRLRTTSGYLGSEFQESMDSSLSQVIAETPTSATELRQHGFSESPGSGLRQHFAAERK
WALGLQSRAHPREIISEVLKALQELNVYWKKIGHYNMKCRWSPGCLESMMHNSDSFSAESAIIE
TDVFMEKSTPTVKFEIQVDREIQLPSYCRGHGRTANPRSPPKRPTIPSRPAARPDPSRPRIRRR
ASRASASVAACSGERDPARLYSPTARYTMEGAGRDANPLSGYRIGKTLGIGSFGKVKIAEHILT
GHKVAIKILNRKKIRSMDMEEKVKREIKILRLFMHPHIIRLYEIISGVEYCHRNMVAHRDLKPE
NLLLDSKCNVKIADFGLSNIMRDGHFLKTSCGSPNYAAPEVISGKLYAGPEVDVWSCGVILYAL
LCGTLPFDDENIPNLFKKIKGGIYTLPSHLSPSARDLIPRMLVVDPMKRITIREIREHVWFKIR
LPRYLAVPPPDTAQQVKKVDEETLNDVIKMGFDKNQLIESLQNRLQNEATVAYYLLLDNRLRTT
SGYLGSEFQESMDSSLSQVIAETPTSATELRQHGFSESPGSGLRQHFAAERKWALGLQSRAHPR
EIISEVLKALQELNVYWKKIGHYNMKCRWSPGCLESMMHNSDSFSAESAIIETDVFMEKSTPTV
KFEIQVDREIQLPSYCRGHGRTANPRSPPKRPTIPSRPAARPDPSRPRIRRRASRASASVAACS
GERDPARLYSPTA(+)
MTSQYMFRDLHFTERPNSQGFANSVTAQRVGISSRSLHRVPRSRGVEASWVPLAGAGGDGGGGA
TGAAPNARPARVRTGGRPGGDRWAFRWAPGIGRAAVPAAITWQLDLSVHLNLKLHCRG*(-)
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	163761111-163770391(+) 163761225-163763465(-)
Potential amino acid sequence	MEGAGRDANPLSGYRIGKTLGIGSFGKVKIAEHILTGHKVAIKILNRKKIRSMDMEEKVKREIK ILRLFMHPHIIRLYEIISGVEYCHRNMVAHRDLKPENLLLDSKCNVKIADFGLSNIMRDGHFLK TSCGSPNYAAPEVISGKLYAGPEVDVWSCGVILYALLCGTLPFDDENIPNLFKKIKGGIYTLPS HLSPSARDLIPRMLVVDPMKRITIREIREHVWFKIRLPRYLAVPPPDTAQQVKKVDEETLNDVI KMGFDKNQLIESLQNRLQNEATVAYYLLLDNRLRTTSGYLGSEFQESMDSSLSQVIAETPTSAT ELRQHGFSESPGSGLRQHFAAERKWALGLQSRAHPREIISEVLKALQELNVYWKKIGHYNMKCR WSPGCLESMMHNSDSFSAESAIIETDVFMEKSTPTVKFEIQVDREIQLPSYCRGHGRTANPRSP PKRPTIPSRPAARPDPSRPRIRRRASRASASVAACSGERDPARLYSPTARYTMEGAGRDANPLS GYRIGKTLGIGSFGKVKIAEHILTGHKVAIKILNRKKIRSMDMEEKVKREIKILRLFMHPHIIR LYEIISGVEYCHRNMVAHRDLKPENLLLDSKCNVKIADFGLSNIMRDGHFLKTSCGSPNYAAPE VISGKLYAGPEVDVWSCGVILYALLCGTLPFDDENIPNLFKKIKGGIYTLPSHLSPSARDLIPR MLVVDPMKRITIREIREHVWFKIRLPRYLAVPPPDTAQQVKKVDEETLNDVIKMGFDKNQLIES LQNRLQNEATVAYYLLLDNRLRTTSGYLGSEFQESMDSSLSQVIAETPTSATELRQHGFSESPG SGLRQHFAAERKWALGLQSRAHPREIISEVLKALQELNVYWKKIGHYNMKCRWSPGCLESMMHN SDSFSAESAIIETDVFMEKSTPTVKFEIQVDREIQLPSYCRGHGRTANPRSPPKRPTIPSRPAA RPDPSRPRIRRRASRASASVAACSGERDPARLYSPTARYTMEGAGRDANPLSGYRIGKTLGIGS FGKVKIAEHILTGHKVAIKILNRKKIRSMDMEEKVKREIKILRLFMHPHIIRLYEIISGVEYCH RNMVAHRDLKPENLLLDSKCNVKIADFGLSNIMRDGHFLKTSCGSPNYAAPEVISGKLYAGPEV DVWSCGVILYALLCGTLPFDDENIPNLFKKIKGGIYTLPSHLSPSARDLIPRMLVVDPMKRITI REIREHVWFKIRLPRYLAVPPPDTAQQVKKVDEETLNDVIKMGFDKNQLIESLQNRLQNEATVA YYLLLDNRLRTTSGYLGSEFQESMDSSLSQVIAETPTSATELRQHGFSESPGSGLRQHFAAERK WALGLQSRAHPREIISEVLKALQELNVYWKKIGHYNMKCRWSPGCLESMMHNSDSFSAESAIIE TDVFMEKSTPTVKFEIQVDREIQLPSYCRGHGRTANPRSPPKRPTIPSRPAARPDPSRPRIRRR ASRASASVAACSGERDPARLYSPTARYTMEGAGRDANPLSGYRIGKTLGIGSFGKVKIAEHILT GHKVAIKILNRKKIRSMDMEEKVKREIKILRLFMHPHIIRLYEIISGVEYCHRNMVAHRDLKPE NLLLDSKCNVKIADFGLSNIMRDGHFLKTSCGSPNYAAPEVISGKLYAGPEVDVWSCGVILYAL LCGTLPFDDENIPNLFKKIKGGIYTLPSHLSPSARDLIPRMLVVDPMKRITIREIREHVWFKIR LPRYLAVPPPDTAQQVKKVDEETLNDVIKMGFDKNQLIESLQNRLQNEATVAYYLLLDNRLRTT SGYLGSEFQESMDSSLSQVIAETPTSATELRQHGFSESPGSGLRQHFAAERKWALGLQSRAHPR EIISEVLKALQELNVYWKKIGHYNMKCRWSPGCLESMMHNSDSFSAESAIIETDVFMEKSTPTV KFEIQVDREIQLPSYCRGHGRTANPRSPPKRPTIPSRPAARPDPSRPRIRRRASRASASVAACS GERDPARLYSPTA(+) MTSQYMFRDLHFTERPNSQGFANSVTAQRVGISSRSLHRVPRSRGVEASWVPLAGAGGDGGGGA TGAAPNARPARVRTGGRPGGDRWAFRWAPGIGRAAVPAAITWQLDLSVHLNLKLHCRG*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ma et al., 2021b

circRNA

Detail information of Zm00001d038745_circ_g.2

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