Plant Circular RNA Database

Detail information of Zm00001d035002_circ_igg.1

			
						 General Information
					
						CircRNA Name
						Zm00001d035002_circ_igg.1
					
						ID in PlantcircBase
						zma_circ_005135
					
						Alias
						seedling_test_circ_001175
					
						Organism
						
							Zea mays						
					
						Position
						
							chr6: 1391976-1396102  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							igg-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							NA						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						NA
					
						Alternative splicing
						
							Zm00001d035001_circ_g.1 Zm00001d035001_circ_ag.1 Zm00001d035001_circ_ag.2 Zm00001d035001_circ_ag.3 Zm00001d035001_circ_ag.4 Zm00001d035001_circ_ag.5 Zm00001d035001_circ_ag.6 						
					
						Support reads
						NA
					
						Tissues
						seedling
					
						Exon boundary  
						
							NA-NA							"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-TA							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
						NA

General Information
CircRNA Name	Zm00001d035002_circ_igg.1
ID in PlantcircBase	zma_circ_005135
Alias	seedling_test_circ_001175
Organism	Zea mays
Position	chr6: 1391976-1396102 JBrowse»
Reference genome	AGPv4.38
Type	igg-circRNA
Identification method	find_circ
Parent gene	NA
Parent gene annotation	NA
Parent gene strand	NA
Alternative splicing	Zm00001d035001_circ_g.1 Zm00001d035001_circ_ag.1 Zm00001d035001_circ_ag.2 Zm00001d035001_circ_ag.3 Zm00001d035001_circ_ag.4 Zm00001d035001_circ_ag.5 Zm00001d035001_circ_ag.6
Support reads	NA
Tissues	seedling
Exon boundary	NA-NA "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-TA 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	NA

			
						 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  
						
							GGTAGCTCTGGTCGGACTGGTCCACGGAGCCGGAGACGACCTTGCCGGCGCAGGAGGAGCAGGA
CCCCGCGCGGCAGGAGTAGGGCAGGTCGATGCCTTCcacgaacagtgctcaaatgaaacaaaag
cagtacgtgtacgcgcgtactcaaattacacacaacgacgacccacagagatagagatggatgg
gcatgaat

									
								

					

						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
						
							CACGAACAGTGCTCAAATGAAACAAAAGCAGTACGTGTACGCGCGTACTCAAATTACACACAAC
GACGACCCACAGAGATAGAGATGGATGGGCATGAATGATTATGCGCCGGTGAGCTCCTCCTCCT
TGTGCGTCTCGATGACGACGTCAGAGGTGGGGTAGGCGTGGCAGGTGAGCACCCAGCCGGCGGC
GATCTGGCCGTCGTCGAGGTAGCTCTGGTCGGACTGGTCCACGGAGCCGGAGACGACCTTGCCG
GCGCAGGAGGAGCAGGACCCCGCGCGGCAGGAGTAGGGCAGGTCGATGCCGTCCTCCTCGGCCT
GGTCCAGGATGTACACGTCGTCGGGCACCTGCAGCTCCACCTCCCCCTCCGGCGTGATCAGCTT
CACGTTGTAGGTGGCCTGCGCGCGCAGCCTGCCCCTGCTGCTGGCGCTACGGCCCATGATGCCC
ACCTTGGCCGCAGGCAGCGCCACGGCGGTGGGCGCCGGCGCGGCACGGAGGGAGGACGGCGAGA
AGAAGAAGGCCGGCGCGCGGGGGCTGCCTAGGACGGTGGCCATTGTTGTCGAGGGGTCGGGGTA
CGGTGGTGTGGCGGCCGGTGCAGTTAGGGAGCTCTAGATGGAGAGAGTGGGGCTGGGGAGAGCG
GCTGCTGGATAGATGGCCAATAGATAGCTTCTCCTGCCCTCCCCTGCCCTGCCCCAGATGACAA
TACCAATGCAAGGGATGGATAGGCTTATCTTCTTGCATTGCCGCCCCAATTTTGGCCACCCGTT
TTTATCGCCCTTCAAACTCACGGGAATTTTGCATGCTGCGGAAATTCAAATTCACATTATTCAT
GTGTAATGTCGATATTCGCATATAAAATAATTCATGGTAACTGATTATTGTGCGCGTGTGTAGG
CCACGAGTCCCTTCAGGTCGTGGGACACGTGGGGTCATGTGGCGCACGAACGAACTTTATAGTT
CGGTGTAACTTATCATTGTTTCTTTAGTTTTTTTTACTTAAATTTAGTTCCGGCGGTTCCTGTT
GAATTTTTGAGGAGTTCCTCCCTTTTCGAGAAAGAGCCCATAAAAAACCTCCCTTTTGGTAGTT
TTTTCAAGGAGTTGTTGAATGAGCCCTACCAGAGGAGGCCTTAGTCGCATAATCTTGGACAAGT
TGTGATAGAGTTAGATGAGAACCAAATAGATCCACAGTCTCCTCATTGCGACGGGGAGGCAGAG
ACAGGTGGTCCGAGGAACAAGTGTCATCGACGTCGAAGTGGGCGACAAGCACTGGTGGTGGTGT
AGTCGTGTAGAAGGGCGACAATGGTGGAGTAGGGCATTAGCATTGAGAAGAGATAAGGTTTTTA
GTGTCAATGATGGCATGTGAGGCCCACATGTTTGATTTTAAACATTGTTTTTTTACTGTCAATG
GGGGAGAGAAGTTCTTCCCCATCTAAGATTTATATATATTACTTCTGTCTGAGAGAAACACATG
AGATTACATTAGTACGTGAAGTTCATCAAAGTATCCGAAGGGACCAGCCAGTGGATAACATTCT
TGGTAGCATAAGGACACGGGTAACAACTCGATCTCGCTTAACAATTTTTTGTGAATCTTACTTG
TTTGTTTCCTCTCTTGAGCCACTTAGGGTAGAAGAAGCACTGGGTGATCTAGAGTGGATAGTAG
CAATGCAAGAGTAATTCAATAACTTCACCCGGAATGAAGTTTAGCCCTTTGTGGAAAGACCCAA
GCAAAATGTCATTGGAACTAAGTGTGTTTTCCGCAACATGCAAGATGAACATGGCTTGGTCACA
AGAAACAAGGCGTGGTTGGTTGCTCAAGGCTTCACTCAAGTAGAAGGGCTTGATTTTGGAGAGA
CATATGCACCAGTGGCAATGTTAGAGTCAATTAAAATTTTGATTGCTTATGCAACTAACCATGA
TTTCAAGCTATATTAAATGGACGACAAGAGTGCATTTCTAAATGGACCACTACAAGAGTTGGTC
TATGTGAAGCAACCATCGGACTTTGAAGATCAAATAAGCCTAACCATGTATTTCTCCTCCATAA
GGTGCTCTATGGGCTTAAGCAATCTCCTAGAGCATAGTATAAATGCCTTAAGGAGTTATTGATT
AAAAATGGCTTTCAAATAGGCAAAGCCGACTCTACTCTATTTACTCGCAAGTTTGATAATGAAC
TATTTGTGTGCCAAATATATGTCGATAACATTATACTTGGCAGTACTAATGATGAGTTTTGTGG
GGAATTTAGCAGGGTAATGATGAATATGTTTGAGATGTCTATGATGGGTGAGTTAAAGTTCTTC
TGAGGATTCCAAGTAAAACAATTAAAGAAAGAGACTTTTCTATGCCAAACCAAGTATATTTGGT
TCATACACCTAACCTAGGCCTTTGGTATCCTAAAGACTCCACTTTCAATTTGCTTCGCTACTCT
GACTCAGATTACATCAGTTGTAAAGTAGATAAAAAGTACCATCGAGACTTGCCAATTCGTTGGG
CGGTCCTTAGTGTCGTGGAGTTCCAAGAAACAAAATTGTGTTGCACTTTCCACTGCCGAGGCTG
AGTATATAGCAGCTGATGTTTGTTGCGCCCAATTTTTATGGATGAAGCAAACCTTGAGGGATTT
TGGTTGTGAGTTTAGCAAAATTCCGCTACTTTGTGTTAATGAGAGTGCCATAAAACTTTCAAAC
AATCACGTGCAACACTTTAGAACTAAACACATTGACATTAGACATCACTTCTTAAGATACCATG
AGGACAAAGGAGATATCAAAATATGGCATGTGAGTGCTGAGAACCAACTAGCCGATATCTTCAT
CATACCCCTAAATGAGACTAGGTTTGTTTTCTCAGAAGTGAACTAAATATCTTGGACTCTCGTA
ACATGTCTTGGAAAGTGTGTGCTTAAAATTTGGATGTTTCATGTGCTGTAAAACTTTTTAAAAT
GACTAATTTCTATATATTTATACAAATTTTTTTGTTAAGTTAGGCAAAATAGATGCCATAATGA
AGATCGCCAAAGGGTTTCTCTGATAATTTTCGGTTGATAGAGTGAGTTGAATAGGCCATTCAAC
CAAATTCTTCTCTGGTCAGACTTGGTTCAACCGGGGAAAAACTCGGTTCAACCGACTTTTGACC
TGCTTTGCCAGTCAACCCTGCCATCTGTCAGTTTGGCCTCGCAGACTGCTCTTCTAGAAAGTCG
GTTCAACCGAGATTAAACCCAATTCAACTTAGTTTGCGCAGAGAGTCGACCGGGTTTATTTCTT
TTTTTCTCTTCTCTCTCTCTTCTCATTCCTTAGTCGAGTTATTTGAAAAGGAGACGCCGCCCCT
TCTCTATCCCCCTCTCAAACCCTCCCCTCAACCAAAATATTGAGCCAAATCCATTGAAACTTGG
AGGACTTCATCATGTTGAGGTCCTCCACCTATTCCCTCCATTGATTTGAAGTTTCGCGAGTGGA
ATCGATAGATCGAGGTAAAGCTCTCTTCTCTATCTTTTGCCCTGATCTTTGGTTATAGCTAAGG
TCTTGTGAATCCCTTTGAGTAAAAGGATCTTGTGGATGTAAGAAACATATTGCTCTAAGGGATT
TCTCTAATTTATTGACGTACTCGACGAAAAAGGGTAATGAATCGTTCATGTGAGGTTGACCCGA
ATAGTTGAACGGCATATATTCCGTTCACTCTCTCTTCCTATCATTTGTTGAATCACCATTTGGT
TATTCTTTTTATCTTATACCTGTGTTTTTAGTTCAAGAATGAAGAACTAGCCGGCGATAAATAT
TTAAAAAATATTTGAAAACAGAGGTAATAGTTTACAATACAGTTTGAAACGGACAAAAAAATTA
CATGCACAGCCAGTATTGAGACATCTTCTACTCTCCTGTGCTTGCAAGTCGACGTGATAATTGG
CGGTGCTTTATTAATTTGCTTAGGAGATAAGGTCATCCTCCTTGTGCGTCTCGATGACGACGTC
GGAGGTGGGGTACGCCACGCAGGTGAGCACCCAGCCGGCGGCGATCTGGCCGTCGTCGAGGTAG
CTCTGGTCGGACTGGTCCACGGAGCCGGAGACGACCTTGCCGGCGCAGGAGGAGCAGGACCCCG
CGCGGCAGGAGTAGGGCAGGTCGATGCCTTC
						
					

			
		

Sequences
Splice junction sequence	GGTAGCTCTGGTCGGACTGGTCCACGGAGCCGGAGACGACCTTGCCGGCGCAGGAGGAGCAGGA CCCCGCGCGGCAGGAGTAGGGCAGGTCGATGCCTTCcacgaacagtgctcaaatgaaacaaaag cagtacgtgtacgcgcgtactcaaattacacacaacgacgacccacagagatagagatggatgg gcatgaat
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	CACGAACAGTGCTCAAATGAAACAAAAGCAGTACGTGTACGCGCGTACTCAAATTACACACAAC GACGACCCACAGAGATAGAGATGGATGGGCATGAATGATTATGCGCCGGTGAGCTCCTCCTCCT TGTGCGTCTCGATGACGACGTCAGAGGTGGGGTAGGCGTGGCAGGTGAGCACCCAGCCGGCGGC GATCTGGCCGTCGTCGAGGTAGCTCTGGTCGGACTGGTCCACGGAGCCGGAGACGACCTTGCCG GCGCAGGAGGAGCAGGACCCCGCGCGGCAGGAGTAGGGCAGGTCGATGCCGTCCTCCTCGGCCT GGTCCAGGATGTACACGTCGTCGGGCACCTGCAGCTCCACCTCCCCCTCCGGCGTGATCAGCTT CACGTTGTAGGTGGCCTGCGCGCGCAGCCTGCCCCTGCTGCTGGCGCTACGGCCCATGATGCCC ACCTTGGCCGCAGGCAGCGCCACGGCGGTGGGCGCCGGCGCGGCACGGAGGGAGGACGGCGAGA AGAAGAAGGCCGGCGCGCGGGGGCTGCCTAGGACGGTGGCCATTGTTGTCGAGGGGTCGGGGTA CGGTGGTGTGGCGGCCGGTGCAGTTAGGGAGCTCTAGATGGAGAGAGTGGGGCTGGGGAGAGCG GCTGCTGGATAGATGGCCAATAGATAGCTTCTCCTGCCCTCCCCTGCCCTGCCCCAGATGACAA TACCAATGCAAGGGATGGATAGGCTTATCTTCTTGCATTGCCGCCCCAATTTTGGCCACCCGTT TTTATCGCCCTTCAAACTCACGGGAATTTTGCATGCTGCGGAAATTCAAATTCACATTATTCAT GTGTAATGTCGATATTCGCATATAAAATAATTCATGGTAACTGATTATTGTGCGCGTGTGTAGG CCACGAGTCCCTTCAGGTCGTGGGACACGTGGGGTCATGTGGCGCACGAACGAACTTTATAGTT CGGTGTAACTTATCATTGTTTCTTTAGTTTTTTTTACTTAAATTTAGTTCCGGCGGTTCCTGTT GAATTTTTGAGGAGTTCCTCCCTTTTCGAGAAAGAGCCCATAAAAAACCTCCCTTTTGGTAGTT TTTTCAAGGAGTTGTTGAATGAGCCCTACCAGAGGAGGCCTTAGTCGCATAATCTTGGACAAGT TGTGATAGAGTTAGATGAGAACCAAATAGATCCACAGTCTCCTCATTGCGACGGGGAGGCAGAG ACAGGTGGTCCGAGGAACAAGTGTCATCGACGTCGAAGTGGGCGACAAGCACTGGTGGTGGTGT AGTCGTGTAGAAGGGCGACAATGGTGGAGTAGGGCATTAGCATTGAGAAGAGATAAGGTTTTTA GTGTCAATGATGGCATGTGAGGCCCACATGTTTGATTTTAAACATTGTTTTTTTACTGTCAATG GGGGAGAGAAGTTCTTCCCCATCTAAGATTTATATATATTACTTCTGTCTGAGAGAAACACATG AGATTACATTAGTACGTGAAGTTCATCAAAGTATCCGAAGGGACCAGCCAGTGGATAACATTCT TGGTAGCATAAGGACACGGGTAACAACTCGATCTCGCTTAACAATTTTTTGTGAATCTTACTTG TTTGTTTCCTCTCTTGAGCCACTTAGGGTAGAAGAAGCACTGGGTGATCTAGAGTGGATAGTAG CAATGCAAGAGTAATTCAATAACTTCACCCGGAATGAAGTTTAGCCCTTTGTGGAAAGACCCAA GCAAAATGTCATTGGAACTAAGTGTGTTTTCCGCAACATGCAAGATGAACATGGCTTGGTCACA AGAAACAAGGCGTGGTTGGTTGCTCAAGGCTTCACTCAAGTAGAAGGGCTTGATTTTGGAGAGA CATATGCACCAGTGGCAATGTTAGAGTCAATTAAAATTTTGATTGCTTATGCAACTAACCATGA TTTCAAGCTATATTAAATGGACGACAAGAGTGCATTTCTAAATGGACCACTACAAGAGTTGGTC TATGTGAAGCAACCATCGGACTTTGAAGATCAAATAAGCCTAACCATGTATTTCTCCTCCATAA GGTGCTCTATGGGCTTAAGCAATCTCCTAGAGCATAGTATAAATGCCTTAAGGAGTTATTGATT AAAAATGGCTTTCAAATAGGCAAAGCCGACTCTACTCTATTTACTCGCAAGTTTGATAATGAAC TATTTGTGTGCCAAATATATGTCGATAACATTATACTTGGCAGTACTAATGATGAGTTTTGTGG GGAATTTAGCAGGGTAATGATGAATATGTTTGAGATGTCTATGATGGGTGAGTTAAAGTTCTTC TGAGGATTCCAAGTAAAACAATTAAAGAAAGAGACTTTTCTATGCCAAACCAAGTATATTTGGT TCATACACCTAACCTAGGCCTTTGGTATCCTAAAGACTCCACTTTCAATTTGCTTCGCTACTCT GACTCAGATTACATCAGTTGTAAAGTAGATAAAAAGTACCATCGAGACTTGCCAATTCGTTGGG CGGTCCTTAGTGTCGTGGAGTTCCAAGAAACAAAATTGTGTTGCACTTTCCACTGCCGAGGCTG AGTATATAGCAGCTGATGTTTGTTGCGCCCAATTTTTATGGATGAAGCAAACCTTGAGGGATTT TGGTTGTGAGTTTAGCAAAATTCCGCTACTTTGTGTTAATGAGAGTGCCATAAAACTTTCAAAC AATCACGTGCAACACTTTAGAACTAAACACATTGACATTAGACATCACTTCTTAAGATACCATG AGGACAAAGGAGATATCAAAATATGGCATGTGAGTGCTGAGAACCAACTAGCCGATATCTTCAT CATACCCCTAAATGAGACTAGGTTTGTTTTCTCAGAAGTGAACTAAATATCTTGGACTCTCGTA ACATGTCTTGGAAAGTGTGTGCTTAAAATTTGGATGTTTCATGTGCTGTAAAACTTTTTAAAAT GACTAATTTCTATATATTTATACAAATTTTTTTGTTAAGTTAGGCAAAATAGATGCCATAATGA AGATCGCCAAAGGGTTTCTCTGATAATTTTCGGTTGATAGAGTGAGTTGAATAGGCCATTCAAC CAAATTCTTCTCTGGTCAGACTTGGTTCAACCGGGGAAAAACTCGGTTCAACCGACTTTTGACC TGCTTTGCCAGTCAACCCTGCCATCTGTCAGTTTGGCCTCGCAGACTGCTCTTCTAGAAAGTCG GTTCAACCGAGATTAAACCCAATTCAACTTAGTTTGCGCAGAGAGTCGACCGGGTTTATTTCTT TTTTTCTCTTCTCTCTCTCTTCTCATTCCTTAGTCGAGTTATTTGAAAAGGAGACGCCGCCCCT TCTCTATCCCCCTCTCAAACCCTCCCCTCAACCAAAATATTGAGCCAAATCCATTGAAACTTGG AGGACTTCATCATGTTGAGGTCCTCCACCTATTCCCTCCATTGATTTGAAGTTTCGCGAGTGGA ATCGATAGATCGAGGTAAAGCTCTCTTCTCTATCTTTTGCCCTGATCTTTGGTTATAGCTAAGG TCTTGTGAATCCCTTTGAGTAAAAGGATCTTGTGGATGTAAGAAACATATTGCTCTAAGGGATT TCTCTAATTTATTGACGTACTCGACGAAAAAGGGTAATGAATCGTTCATGTGAGGTTGACCCGA ATAGTTGAACGGCATATATTCCGTTCACTCTCTCTTCCTATCATTTGTTGAATCACCATTTGGT TATTCTTTTTATCTTATACCTGTGTTTTTAGTTCAAGAATGAAGAACTAGCCGGCGATAAATAT TTAAAAAATATTTGAAAACAGAGGTAATAGTTTACAATACAGTTTGAAACGGACAAAAAAATTA CATGCACAGCCAGTATTGAGACATCTTCTACTCTCCTGTGCTTGCAAGTCGACGTGATAATTGG CGGTGCTTTATTAATTTGCTTAGGAGATAAGGTCATCCTCCTTGTGCGTCTCGATGACGACGTC GGAGGTGGGGTACGCCACGCAGGTGAGCACCCAGCCGGCGGCGATCTGGCCGTCGTCGAGGTAG CTCTGGTCGGACTGGTCCACGGAGCCGGAGACGACCTTGCCGGCGCAGGAGGAGCAGGACCCCG CGCGGCAGGAGTAGGGCAGGTCGATGCCTTC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.057753917

Conservation Information
Conserved circRNAs	NA
PMCS	0.057753917

			
						 Functional Information
					
						Coding potential
						N
					
						Potential coding position
						
							NA
						
						Potential amino acid sequence
						
							NA
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	N
Potential coding position	NA
Potential amino acid sequence	NA
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Tang et al., 2018

circRNA

Detail information of Zm00001d035002_circ_igg.1

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