Plant Circular RNA Database

Detail information of Zm00001d037377_circ_g.1

			
						 General Information
					
						CircRNA Name
						Zm00001d037377_circ_g.1
					
						ID in PlantcircBase
						zma_circ_002292
					
						Alias
						circ1980
					
						Organism
						
							Zea mays						
					
						Position
						
							chr6: 123581592-123583570  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRCexplor2
					
						Parent gene
						
							Zm00001d037377						
					
						Parent gene annotation
						
							binding
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Zm00001d037377_circ_g.2 Zm00001d037377_circ_g.3 Zm00001d037377_circ_g.4 						
					
						Support reads
						21
					
						Tissues
						seedling leaves
					
						Exon boundary  
						
							No-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-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
						Zm00001d037377_T052:7
Zm00001d037377_T073:7
Zm00001d037377_T060:7
Zm00001d037377_T012:7
Zm00001d037377_T010:7
Zm00001d037377_T069:7
Zm00001d037377_T003:7
Zm00001d037377_T054:7
Zm00001d037377_T032:7
Zm00001d037377_T059:7
Zm00001d037377_T019:7
Zm00001d037377_T061:7
Zm00001d037377_T004:7
Zm00001d037377_T074:3
Zm00001d037377_T006:7
Zm00001d037377_T047:7
Zm00001d037377_T008:7
Zm00001d037377_T063:8
Zm00001d037377_T025:6
Zm00001d037377_T034:7
Zm00001d037377_T064:6
Zm00001d037377_T029:7
Zm00001d037377_T011:7
Zm00001d037377_T056:7
Zm00001d037377_T007:7
Zm00001d037377_T037:7
Zm00001d037377_T031:7
Zm00001d037377_T055:7
Zm00001d037377_T053:7
Zm00001d037377_T076:4
Zm00001d037377_T070:7
Zm00001d037377_T066:7
Zm00001d037377_T026:7
Zm00001d037377_T067:7
Zm00001d037377_T009:7
Zm00001d037377_T005:7
Zm00001d037377_T065:7
Zm00001d037377_T002:7
Zm00001d037377_T036:7
Zm00001d037377_T068:7

General Information
CircRNA Name	Zm00001d037377_circ_g.1
ID in PlantcircBase	zma_circ_002292
Alias	circ1980
Organism	Zea mays
Position	chr6: 123581592-123583570 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	CIRCexplor2
Parent gene	Zm00001d037377
Parent gene annotation	binding
Parent gene strand	-
Alternative splicing	Zm00001d037377_circ_g.2 Zm00001d037377_circ_g.3 Zm00001d037377_circ_g.4
Support reads	21
Tissues	seedling leaves
Exon boundary	No-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-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	Zm00001d037377_T052:7 Zm00001d037377_T073:7 Zm00001d037377_T060:7 Zm00001d037377_T012:7 Zm00001d037377_T010:7 Zm00001d037377_T069:7 Zm00001d037377_T003:7 Zm00001d037377_T054:7 Zm00001d037377_T032:7 Zm00001d037377_T059:7 Zm00001d037377_T019:7 Zm00001d037377_T061:7 Zm00001d037377_T004:7 Zm00001d037377_T074:3 Zm00001d037377_T006:7 Zm00001d037377_T047:7 Zm00001d037377_T008:7 Zm00001d037377_T063:8 Zm00001d037377_T025:6 Zm00001d037377_T034:7 Zm00001d037377_T064:6 Zm00001d037377_T029:7 Zm00001d037377_T011:7 Zm00001d037377_T056:7 Zm00001d037377_T007:7 Zm00001d037377_T037:7 Zm00001d037377_T031:7 Zm00001d037377_T055:7 Zm00001d037377_T053:7 Zm00001d037377_T076:4 Zm00001d037377_T070:7 Zm00001d037377_T066:7 Zm00001d037377_T026:7 Zm00001d037377_T067:7 Zm00001d037377_T009:7 Zm00001d037377_T005:7 Zm00001d037377_T065:7 Zm00001d037377_T002:7 Zm00001d037377_T036:7 Zm00001d037377_T068:7

			
						 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  
						
							TATAGATATTATTGTAGTGAAGCTGTCCTTTTTCATGCCTGGGACACTATGTTGCAAACCTTCT
TCCCCCAGGAGGATTGAAAGAATCAGATATAGTCGCccctatgttttttcttggatgaatcgta
tgattgcacggcaccttcataaaatctaatgacaaaaaacttaaaatcaacaccacattcagga
ataaacta

									
								

					

						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
						
							CCCTATGTTTTTTCTTGGATGAATCGTATGATTGCACGGCACCTTCATAAAATCTAATGACAAA
AAACTTAAAATCAACACCACATTCAGGAATAAACTAATTTCAATAACATAAGTACAGATAACAA
TAACATTTACTAGACAACATACCTCTTATCCAAAGGCCACCAAACTTTTATTCGGTGTCCTACC
AAGTCTGTACTGCTTGAGTCTTGTGTTGAGCACTGCCCGCATAAACACATTCTTAGCAGCCACA
AGACAATAGAAGAAAAAATGCTTGCACAAATTTGAATATTGCCAAGAATATATATATATATATA
TATATAACAAATTTGAAGGGCGGGTCTGGTGTACCGGTAGAGCCTACAATATGTAACCGAAAGG
TCCCAGGTTGGAGCCCCAGCCTCCGCATATTATGCGGGTAAGGCTTGGCGCTTAAAGATACCCT
TCCCCAGACCCCGCACAGTGCGGGAAGCCTACGGCACTGGGTACACCCTTTTTTTATATGTGCT
TCCTTCCAATGATAGGCATGATTTGCACAAAAGTTGTAGCTAACACAATTGGCTTATAATATAG
AACAGAATTAATCATTACCTTTAGTAAACCAGAAATTGGTTTTGACTTTTGCCTTTTGAGTGAC
CCATTTAGACTTCTCGGTTCAACAGTTCTCTTAGTACTGTCTGCATCAGCAGACTTCTGAAAAG
GTTGAATAAGAATTGAAACAATCATAAACTAGAACTCAAAAGTTTTATTGATACATAGATACCA
TAGAGATGGAAGAAGTCACCTTTGGAACACTGCTCAAAATATTAATATTGGATTTCTTAGCACC
CTTATTTTGTTTAGATACAGGGGTTCTAGTGCTTGGAGATACTAACAGTTCTGTATCAGTTGAA
TCATCTCTGTCTTTCTCCTTCATCTTAGTTTCCAAGGAGATATTGGTCCTCTCTGAGTTAGGAG
TATGTAGTAGACGCTCATCACTGCTTTTACTACCTTTTGCTGAATGTGGTCTACTCTTAGAAAT
TGATCTTTTGCGTTTAGGTGAAGAAAAATCAAGTGGTTTCTGGTTACTATCTTTTGCATTTGTA
TGACGCTTCTCAGACTTGTCCTTATGCGATTCCTCCAAATCTTCTTGATTGTTTAAGTTAATTT
CTCTTACTAAACCCAGAACATCATCGTTCTCTGCATTTACTGAACTACTAGATGGTGCCTTCTG
CTTTTCCCCAATCTTCCTTTCTCCTCGTGATTTAAGAAGTTTGACAATTTTGCCAAGAGGAACT
TCATTTCCAAATTCATCAGTCACATCAATAAGCATCTTATGTTTGGGAGATTCAACCTGGAAAT
ACATTAAAAAACAAAATAGTGTAGTTGATACAACAGATAAAGAAAGCTGAGCAACAATATTAAC
AACCTATTATGCATCAAATACCTTATCCATATTTGCAGTCCTTACAGCCTCAAAATGGGCCAGT
ACTTTCTCACATCCCAGCCAAATCTGCTCATTATTCTCCTGCACAATATTACACAATATCAATA
CCACAAACTTTATGAACTATCAAGCAGTTATCTCATGCTTTGTTGGAGCACACACCACAGAATT
TTCATTTTGGTTATCATGAAGCGGCGTGTAAAGTTGAGCAGGCAATGGAACTGTTTGAGCTTCT
GATAAACTCGTTTGGTCTTGGCATAACCTCTTTGCAATAAGAGTACCAAGATCACATATAGCAC
ACACAGTCTGCAAACAGCATATCAAACATCAGGTCGCACTTAGTAGCAACACATGTACAGCAAC
CCAAATGAAGAGAAAGTACAATCAAACACATTTTACCTTGGTCTTACTTCCATCAACCACATCC
TGTGAAGATTTTATACTTTTGAATATAGATATTATTGTAGTGAAGCTGTCCTTTTTCATGCCTG
GGACACTATGTTGCAAACCTTCTTCCCCCAGGAGGATTGAAAGAATCAGATATAGTCGC
						
					

			
		

Sequences
Splice junction sequence	TATAGATATTATTGTAGTGAAGCTGTCCTTTTTCATGCCTGGGACACTATGTTGCAAACCTTCT TCCCCCAGGAGGATTGAAAGAATCAGATATAGTCGCccctatgttttttcttggatgaatcgta tgattgcacggcaccttcataaaatctaatgacaaaaaacttaaaatcaacaccacattcagga ataaacta
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	CCCTATGTTTTTTCTTGGATGAATCGTATGATTGCACGGCACCTTCATAAAATCTAATGACAAA AAACTTAAAATCAACACCACATTCAGGAATAAACTAATTTCAATAACATAAGTACAGATAACAA TAACATTTACTAGACAACATACCTCTTATCCAAAGGCCACCAAACTTTTATTCGGTGTCCTACC AAGTCTGTACTGCTTGAGTCTTGTGTTGAGCACTGCCCGCATAAACACATTCTTAGCAGCCACA AGACAATAGAAGAAAAAATGCTTGCACAAATTTGAATATTGCCAAGAATATATATATATATATA TATATAACAAATTTGAAGGGCGGGTCTGGTGTACCGGTAGAGCCTACAATATGTAACCGAAAGG TCCCAGGTTGGAGCCCCAGCCTCCGCATATTATGCGGGTAAGGCTTGGCGCTTAAAGATACCCT TCCCCAGACCCCGCACAGTGCGGGAAGCCTACGGCACTGGGTACACCCTTTTTTTATATGTGCT TCCTTCCAATGATAGGCATGATTTGCACAAAAGTTGTAGCTAACACAATTGGCTTATAATATAG AACAGAATTAATCATTACCTTTAGTAAACCAGAAATTGGTTTTGACTTTTGCCTTTTGAGTGAC CCATTTAGACTTCTCGGTTCAACAGTTCTCTTAGTACTGTCTGCATCAGCAGACTTCTGAAAAG GTTGAATAAGAATTGAAACAATCATAAACTAGAACTCAAAAGTTTTATTGATACATAGATACCA TAGAGATGGAAGAAGTCACCTTTGGAACACTGCTCAAAATATTAATATTGGATTTCTTAGCACC CTTATTTTGTTTAGATACAGGGGTTCTAGTGCTTGGAGATACTAACAGTTCTGTATCAGTTGAA TCATCTCTGTCTTTCTCCTTCATCTTAGTTTCCAAGGAGATATTGGTCCTCTCTGAGTTAGGAG TATGTAGTAGACGCTCATCACTGCTTTTACTACCTTTTGCTGAATGTGGTCTACTCTTAGAAAT TGATCTTTTGCGTTTAGGTGAAGAAAAATCAAGTGGTTTCTGGTTACTATCTTTTGCATTTGTA TGACGCTTCTCAGACTTGTCCTTATGCGATTCCTCCAAATCTTCTTGATTGTTTAAGTTAATTT CTCTTACTAAACCCAGAACATCATCGTTCTCTGCATTTACTGAACTACTAGATGGTGCCTTCTG CTTTTCCCCAATCTTCCTTTCTCCTCGTGATTTAAGAAGTTTGACAATTTTGCCAAGAGGAACT TCATTTCCAAATTCATCAGTCACATCAATAAGCATCTTATGTTTGGGAGATTCAACCTGGAAAT ACATTAAAAAACAAAATAGTGTAGTTGATACAACAGATAAAGAAAGCTGAGCAACAATATTAAC AACCTATTATGCATCAAATACCTTATCCATATTTGCAGTCCTTACAGCCTCAAAATGGGCCAGT ACTTTCTCACATCCCAGCCAAATCTGCTCATTATTCTCCTGCACAATATTACACAATATCAATA CCACAAACTTTATGAACTATCAAGCAGTTATCTCATGCTTTGTTGGAGCACACACCACAGAATT TTCATTTTGGTTATCATGAAGCGGCGTGTAAAGTTGAGCAGGCAATGGAACTGTTTGAGCTTCT GATAAACTCGTTTGGTCTTGGCATAACCTCTTTGCAATAAGAGTACCAAGATCACATATAGCAC ACACAGTCTGCAAACAGCATATCAAACATCAGGTCGCACTTAGTAGCAACACATGTACAGCAAC CCAAATGAAGAGAAAGTACAATCAAACACATTTTACCTTGGTCTTACTTCCATCAACCACATCC TGTGAAGATTTTATACTTTTGAATATAGATATTATTGTAGTGAAGCTGTCCTTTTTCATGCCTG GGACACTATGTTGCAAACCTTCTTCCCCCAGGAGGATTGAAAGAATCAGATATAGTCGC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.102774878

Conservation Information
Conserved circRNAs	NA
PMCS	0.102774878

			
						 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
						Chen et al., 2017b

circRNA

Detail information of Zm00001d037377_circ_g.1

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