Plant Circular RNA Database

Detail information of AT1G61380_circ_g.1

			
						 General Information
					
						CircRNA Name
						AT1G61380_circ_g.1
					
						ID in PlantcircBase
						ath_circ_008304
					
						Alias
						At_ciR2492
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 22647918-22649337  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							AT1G61380						
					
						Parent gene annotation
						
							G-type lectin S-receptor-like serine/threonine-protein kinase SD
1-29
							
						Parent gene strand
						-
					
						Alternative splicing
						
							1_circ_ag.2 1_circ_ag.2 1_circ_ag.3 1_circ_ag.4 1_circ_ag.5 1_circ_ag.6 1_circ_ag.7 AT1G61430_circ_g.1 1_circ_ag.2 AT1G61430_circ_g.3 1_circ_ag.4 1_circ_ag.5 1_circ_ag.6 1_circ_ag.7 1_circ_ag.8 AT1G61520_circ_g.1 AT1G61520_circ_g.2 AT1G61520_circ_g.3 AT1G61520_circ_g.4 AT1G61520_circ_g.5 AT1G61520_circ_g.6 AT1G61520_circ_g.7 AT1G61520_circ_g.8 AT1G61520_circ_g.9 AT1G61520_circ_g.10 AT1G61520_circ_g.11 AT1G61520_circ_g.12 AT1G61520_circ_g.13 AT1G61520_circ_g.14 AT1G61520_circ_g.15 AT1G61520_circ_g.16 AT1G61520_circ_g.17 AT1G61520_circ_g.18 AT1G61520_circ_g.19 						
					
						Support reads
						3
					
						Tissues
						leaf
					
						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  
						
							CT-AC							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
						AT1G61380.1:2
AT1G61380.2:2

General Information
CircRNA Name	AT1G61380_circ_g.1
ID in PlantcircBase	ath_circ_008304
Alias	At_ciR2492
Organism	Arabidpsis thaliana
Position	chr1: 22647918-22649337 JBrowse»
Reference genome	TAIR10.38
Type	ue-circRNA
Identification method	find_circ
Parent gene	AT1G61380
Parent gene annotation	G-type lectin S-receptor-like serine/threonine-protein kinase SD 1-29
Parent gene strand	-
Alternative splicing	1_circ_ag.2 1_circ_ag.2 1_circ_ag.3 1_circ_ag.4 1_circ_ag.5 1_circ_ag.6 1_circ_ag.7 AT1G61430_circ_g.1 1_circ_ag.2 AT1G61430_circ_g.3 1_circ_ag.4 1_circ_ag.5 1_circ_ag.6 1_circ_ag.7 1_circ_ag.8 AT1G61520_circ_g.1 AT1G61520_circ_g.2 AT1G61520_circ_g.3 AT1G61520_circ_g.4 AT1G61520_circ_g.5 AT1G61520_circ_g.6 AT1G61520_circ_g.7 AT1G61520_circ_g.8 AT1G61520_circ_g.9 AT1G61520_circ_g.10 AT1G61520_circ_g.11 AT1G61520_circ_g.12 AT1G61520_circ_g.13 AT1G61520_circ_g.14 AT1G61520_circ_g.15 AT1G61520_circ_g.16 AT1G61520_circ_g.17 AT1G61520_circ_g.18 AT1G61520_circ_g.19
Support reads	3
Tissues	leaf
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	CT-AC 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	AT1G61380.1:2 AT1G61380.2:2

			
						 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  
						
							TGATTCTGAGTATTATTAGGACTGAAGAAGCCTAACTCATAAAATCCACCAGGAGAACTCAGAG
TTTGTCTTATTGACAAAGGACTTGATGTGTTTATAGcattttgtttcgctctgtatctccacaa
cataattgcagcaaataccaagatcaagaaaatggaaaggctgacagtagtgcctacgataatc
ttccttcg

						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
						
							CATTTTGTTTCGCTCTGTATCTCCACAACATAATTGCAGCAAATACCAAGATCAAGAAAATGGA
AAGGCTGACAGTAGTGCCTACGATAATCTTCCTTCGACTGCTTCCAGCTGAGATATTCACCAGA
AACAGATAAAAAAACGCTAAATCATGCTGCTACAAAACATTATAAAGAAAGTTGAATTTCATAA
TCTCGGAAGAAATGTATTTTATCCTTACCCAATTCTGAACTTGCAAGACGAATGAAGAGAAACT
CTCCGCTAGACAAAAATTGAACGGTGTCTGCTAGCTCCCCATTCCATACCAAACATCCAATTCC
ACTAATATAGGCGAAGGCTGTGCAAGAACAGTTGCCTAGACAACCTTGATAGCACTGTTCGGCA
TTGAGAAAGCTTGCAAATTGGTGCAGATCCGGAGTCTTTACATCTGTCATACGATAGAAGATGT
CTGTGTCTTTGCCTTGTGTTTTCATAGAAGATTTTGCTTGGCAAGATAATTTTGTACGTCTCAC
ACACCCACTTGTCCAGTTTCCTTTTCCCCACTCCTCATCAGACTTTGGTACAAACCCTTTCAAG
CATTCACACTTTGGGGGATCAGATCTCACACACAAACCATAAGGCCCGCATCTACCATATAGAT
CACATGGGTTCTCTGGGAGAGACAAGTGAAGCTTCCAATTATTTCCATCATCCCAGAGGATCTT
CATTTTCCCTTCTGGTGTTAGCGTAACATATGAGAGATTATAGTTTCTTAATGTGGAATAAGAG
AAAGATCCTGTGCCGGCTGCTGTATCCTGGACAACGCTGAATGGACTTACATATGATGCATCAA
TTCCAGATATCCCAGAGAATCTTGTTTTTGCCCAAGGACCACATCTCCAGTAAGGTACTGAGCC
TCTTCTTATAAGGCCTTGTGTGGGGATTTGTGGTGTAATCTCCAGTGAGAACTCCCCAGGCGAA
GGATCGCTGTTACTTTTCCATGTAGTCAACACACGCTTCTTGCCATTAGAAGTATCATACATCA
ATGATGACTGAGGCAGCATAGTATTACCAAGATGCTCGAAGCTTTGCCATAATTTATTCCCTGA
AACATCATCAATTACAACAAAATTTCCGGTATCTAAGAGCTCCGCATGACATTTGTTGGATGTG
AAAGCTTTTCCTGTTGACCAAATAACATCTTGTTTCCCATCAAGCAAGATCAGGCTCCCATTGC
TGCTGATAGTGAGATTTGCTGCAGAGCTAGTAACTGGCGTATCTCTGTTAGCCACCCACACAAC
TACACGAGGAACAATCTTCTTGAACCAGATCCCGACATACTGATTCTGAGTATTATTAGGACTG
AAGAAGCCTAACTCATAAAATCCACCAGGAGAACTCAGAGTTTGTCTTATTGACAAAGGACTTG
ATGTGTTTATAG

Sequences
Splice junction sequence	TGATTCTGAGTATTATTAGGACTGAAGAAGCCTAACTCATAAAATCCACCAGGAGAACTCAGAG TTTGTCTTATTGACAAAGGACTTGATGTGTTTATAGcattttgtttcgctctgtatctccacaa cataattgcagcaaataccaagatcaagaaaatggaaaggctgacagtagtgcctacgataatc ttccttcg
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	CATTTTGTTTCGCTCTGTATCTCCACAACATAATTGCAGCAAATACCAAGATCAAGAAAATGGA AAGGCTGACAGTAGTGCCTACGATAATCTTCCTTCGACTGCTTCCAGCTGAGATATTCACCAGA AACAGATAAAAAAACGCTAAATCATGCTGCTACAAAACATTATAAAGAAAGTTGAATTTCATAA TCTCGGAAGAAATGTATTTTATCCTTACCCAATTCTGAACTTGCAAGACGAATGAAGAGAAACT CTCCGCTAGACAAAAATTGAACGGTGTCTGCTAGCTCCCCATTCCATACCAAACATCCAATTCC ACTAATATAGGCGAAGGCTGTGCAAGAACAGTTGCCTAGACAACCTTGATAGCACTGTTCGGCA TTGAGAAAGCTTGCAAATTGGTGCAGATCCGGAGTCTTTACATCTGTCATACGATAGAAGATGT CTGTGTCTTTGCCTTGTGTTTTCATAGAAGATTTTGCTTGGCAAGATAATTTTGTACGTCTCAC ACACCCACTTGTCCAGTTTCCTTTTCCCCACTCCTCATCAGACTTTGGTACAAACCCTTTCAAG CATTCACACTTTGGGGGATCAGATCTCACACACAAACCATAAGGCCCGCATCTACCATATAGAT CACATGGGTTCTCTGGGAGAGACAAGTGAAGCTTCCAATTATTTCCATCATCCCAGAGGATCTT CATTTTCCCTTCTGGTGTTAGCGTAACATATGAGAGATTATAGTTTCTTAATGTGGAATAAGAG AAAGATCCTGTGCCGGCTGCTGTATCCTGGACAACGCTGAATGGACTTACATATGATGCATCAA TTCCAGATATCCCAGAGAATCTTGTTTTTGCCCAAGGACCACATCTCCAGTAAGGTACTGAGCC TCTTCTTATAAGGCCTTGTGTGGGGATTTGTGGTGTAATCTCCAGTGAGAACTCCCCAGGCGAA GGATCGCTGTTACTTTTCCATGTAGTCAACACACGCTTCTTGCCATTAGAAGTATCATACATCA ATGATGACTGAGGCAGCATAGTATTACCAAGATGCTCGAAGCTTTGCCATAATTTATTCCCTGA AACATCATCAATTACAACAAAATTTCCGGTATCTAAGAGCTCCGCATGACATTTGTTGGATGTG AAAGCTTTTCCTGTTGACCAAATAACATCTTGTTTCCCATCAAGCAAGATCAGGCTCCCATTGC TGCTGATAGTGAGATTTGCTGCAGAGCTAGTAACTGGCGTATCTCTGTTAGCCACCCACACAAC TACACGAGGAACAATCTTCTTGAACCAGATCCCGACATACTGATTCTGAGTATTATTAGGACTG AAGAAGCCTAACTCATAAAATCCACCAGGAGAACTCAGAGTTTGTCTTATTGACAAAGGACTTG ATGTGTTTATAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.162620006

Conservation Information
Conserved circRNAs	NA
PMCS	0.162620006

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							22648961-22647920(-)
						
					

						Potential amino acid sequence
						
							MLPQSSLMYDTSNGKKRVLTTWKSNSDPSPGEFSLEITPQIPTQGLIRRGSVPYWRCGPWAKTR
FSGISGIDASYVSPFSVVQDTAAGTGSFSYSTLRNYNLSYVTLTPEGKMKILWDDGNNWKLHLS
LPENPCDLYGRCGPYGLCVRSDPPKCECLKGFVPKSDEEWGKGNWTSGCVRRTKLSCQAKSSMK
TQGKDTDIFYRMTDVKTPDLHQFASFLNAEQCYQGCLGNCSCTAFAYISGIGCLVWNGELADTV
QFLSSGEFLFIRLASSELAGSSRRKIIVGTTVSLSIFLILVFAAIMLWRYRAKQNAINTSSPLS
IRQTLSSPGGFYELGFFSPNNTQNQYVGIWFKKIVPRVVVWVANRDTPVTSSAANLTISSNGSL
ILLDGKQDVIWSTGKAFTSNKCHAELLDTGNFVVIDDVSGNKLWQSFEHLGNTMLPQSSLMYDT
SNGKKRVLTTWKSNSDPSPGEFSLEITPQIPTQGLIRRGSVPYWRCGPWAKTRFSGISGIDASY
VSPFSVVQDTAAGTGSFSYSTLRNYNLSYVTLTPEGKMKILWDDGNNWKLHLSLPENPCDLYGR
CGPYGLCVRSDPPKCECLKGFVPKSDEEWGKGNWTSGCVRRTKLSCQAKSSMKTQGKDTDIFYR
MTDVKTPDLHQFASFLNAEQCYQGCLGNCSCTAFAYISGIGCLVWNGELADTVQFLSSGEFLFI
RLASSELAGSSRRKIIVGTTVSLSIFLILVFAAIMLWRYRAKQNAINTSSPLSIRQTLSSPGGF
YELGFFSPNNTQNQYVGIWFKKIVPRVVVWVANRDTPVTSSAANLTISSNGSLILLDGKQDVIW
STGKAFTSNKCHAELLDTGNFVVIDDVSGNKLWQSFEHLGNTMLPQSSLMYDTSNGKKRVLTTW
KSNSDPSPGEFSLEITPQIPTQGLIRRGSVPYWRCGPWAKTRFSGISGIDASYVSPFSVVQDTA
AGTGSFSYSTLRNYNLSYVTLTPEGKMKILWDDGNNWKLHLSLPENPCDLYGRCGPYGLCVRSD
PPKCECLKGFVPKSDEEWGKGNWTSGCVRRTKLSCQAKSSMKTQGKDTDIFYRMTDVKTPDLHQ
FASFLNAEQCYQGCLGNCSCTAFAYISGIGCLVWNGELADTVQFLSSGEFLFIRLASSELAGSS
RRKIIVGTTVSLSIFLILVFAAIMLWRYRAKQNAINTSSPLSIRQTLSSPGGFYELGFFSPNNT
QNQYVGIWFKKIVPRVVVWVANRDTPVTSSAANLTISSNGSLILLDGKQDVIWSTGKAFTSNKC
HAELLDTGNFVVIDDVSGNKLWQSFEHLGNTMLPQSSLMYDTSNGKKRVLTTWKSNSDPSPGEF
SLEITPQIPTQGLIRRGSVPYWRCGPWAKTRFSGISGIDASYVSPFSVVQDTAAGTGSFSYSTL
RNYNLSYVTLTPEGKMKILWDDGNNWKLHLSLPENPCDLYGRCGPYGLCVRSDPPKCECLKGFV
PKSDEEWGKGNWTSGCVRRTKLSCQAKSSMKTQGKDTDIFYRMTDVKTPDLHQFASFLNAEQCY
QGCLGNCSCTAFAYISGIGCLVWNGELADTVQFLSSGEFLFIRLASSELAGSSRRKIIVGTTVS
LSIFLILVFAAIMLWRYRAKQN(-)
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	22648961-22647920(-)
Potential amino acid sequence	MLPQSSLMYDTSNGKKRVLTTWKSNSDPSPGEFSLEITPQIPTQGLIRRGSVPYWRCGPWAKTR FSGISGIDASYVSPFSVVQDTAAGTGSFSYSTLRNYNLSYVTLTPEGKMKILWDDGNNWKLHLS LPENPCDLYGRCGPYGLCVRSDPPKCECLKGFVPKSDEEWGKGNWTSGCVRRTKLSCQAKSSMK TQGKDTDIFYRMTDVKTPDLHQFASFLNAEQCYQGCLGNCSCTAFAYISGIGCLVWNGELADTV QFLSSGEFLFIRLASSELAGSSRRKIIVGTTVSLSIFLILVFAAIMLWRYRAKQNAINTSSPLS IRQTLSSPGGFYELGFFSPNNTQNQYVGIWFKKIVPRVVVWVANRDTPVTSSAANLTISSNGSL ILLDGKQDVIWSTGKAFTSNKCHAELLDTGNFVVIDDVSGNKLWQSFEHLGNTMLPQSSLMYDT SNGKKRVLTTWKSNSDPSPGEFSLEITPQIPTQGLIRRGSVPYWRCGPWAKTRFSGISGIDASY VSPFSVVQDTAAGTGSFSYSTLRNYNLSYVTLTPEGKMKILWDDGNNWKLHLSLPENPCDLYGR CGPYGLCVRSDPPKCECLKGFVPKSDEEWGKGNWTSGCVRRTKLSCQAKSSMKTQGKDTDIFYR MTDVKTPDLHQFASFLNAEQCYQGCLGNCSCTAFAYISGIGCLVWNGELADTVQFLSSGEFLFI RLASSELAGSSRRKIIVGTTVSLSIFLILVFAAIMLWRYRAKQNAINTSSPLSIRQTLSSPGGF YELGFFSPNNTQNQYVGIWFKKIVPRVVVWVANRDTPVTSSAANLTISSNGSLILLDGKQDVIW STGKAFTSNKCHAELLDTGNFVVIDDVSGNKLWQSFEHLGNTMLPQSSLMYDTSNGKKRVLTTW KSNSDPSPGEFSLEITPQIPTQGLIRRGSVPYWRCGPWAKTRFSGISGIDASYVSPFSVVQDTA AGTGSFSYSTLRNYNLSYVTLTPEGKMKILWDDGNNWKLHLSLPENPCDLYGRCGPYGLCVRSD PPKCECLKGFVPKSDEEWGKGNWTSGCVRRTKLSCQAKSSMKTQGKDTDIFYRMTDVKTPDLHQ FASFLNAEQCYQGCLGNCSCTAFAYISGIGCLVWNGELADTVQFLSSGEFLFIRLASSELAGSS RRKIIVGTTVSLSIFLILVFAAIMLWRYRAKQNAINTSSPLSIRQTLSSPGGFYELGFFSPNNT QNQYVGIWFKKIVPRVVVWVANRDTPVTSSAANLTISSNGSLILLDGKQDVIWSTGKAFTSNKC HAELLDTGNFVVIDDVSGNKLWQSFEHLGNTMLPQSSLMYDTSNGKKRVLTTWKSNSDPSPGEF SLEITPQIPTQGLIRRGSVPYWRCGPWAKTRFSGISGIDASYVSPFSVVQDTAAGTGSFSYSTL RNYNLSYVTLTPEGKMKILWDDGNNWKLHLSLPENPCDLYGRCGPYGLCVRSDPPKCECLKGFV PKSDEEWGKGNWTSGCVRRTKLSCQAKSSMKTQGKDTDIFYRMTDVKTPDLHQFASFLNAEQCY QGCLGNCSCTAFAYISGIGCLVWNGELADTVQFLSSGEFLFIRLASSELAGSSRRKIIVGTTVS LSIFLILVFAAIMLWRYRAKQN(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015

circRNA

Detail information of AT1G61380_circ_g.1

Address

Any questions?

Supported by