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mmu_circJade1_1365
Basic information of circular RNA
PanCircBase ID:
mmu_circJade1_1365
mm39_Chr. Position ID:
chr3|41546117|41559426|+
Gene name:
Jade1
Transcript:
ENSMUST00000026865.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
4,5,6,7,8,9
Exon/intron offsets:
0,2084,4932,8339,9684,12787
Genomic length:
13309
Exon/intron sizes in nt:
158,188,212,168,117,522
Flanking exon/introns:
chr3:41543457-41546117|chr3:41559426-41564237
Splice length:
1365
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTGTTTAGGACCGACCTGATCACTGCCATGAAGTTGCATGACTCCTACCAGCTGAACCCGGATGACTACTACGTGCTGGCTGATCCCTGGAGACAGGAGTGGGAGAAAGGGGTCCAGGTGCCTGTGAGCCCAGGGACCATCCCACAGCCTGTGGCCAGGGTTGTGTCTGAAGAGAAGTCTCTCATGTTCATCAGGCCCAAGAAGTACATCGCGTCGTCCGGCTCTGAGCCCCCAGCGTTAGGCTACGTCGATATCCGGACTCTGGCAGACAGTGTGTGTCGGTATGACCTCAATGATATGGATGCTGCGTGGCTGGAAGTAACCAATGAAGAATTTAAGGAGATGGGGATGCCGGAGCTGGACGAGTACACCATGGAAAGGGTCTTGGAGGAATTCGAACAGCGATGCTATGACAATATGAATCATGCCATAGAGACAGAAGAGGGCTTGGGGATTGAATACGACGAAGACGTTGTCTGCGATGTCTGCCAGTCACCTGATGGCGAGGACGGCAACGAGATGGTGTTCTGTGACAAGTGTAACATCTGTGTGCACCAGGCTTGCTATGGGATCCTCAAGGTGCCAGAGGGCAGTTGGCTATGTCGTACATGTGCCCTGGGAGTTCAGCCAAAATGTTTGCTGTGTCCCAAGAAAGGCGGAGCTATGAAGCCGACCCGCAGCGGAACCAAGTGGGTCCACGTCAGCTGTGCCCTGTGGATCCCTGAGGTAAGCATTGGCAGCCCTGAGAAGATGGAGCCCATCACAAAAGTGTCTCACATTCCCAGCAGCCGGTGGGCGCTTGTGTGCAGCCTCTGCAATGAGAAATTCGGGGCCTCCATACAGTGCTCTGTGAAGAACTGCCGGACAGCCTTCCACGTGACTTGTGCTTTTGACCGTGGCCTGGAGATGAAGACCATATTGGCAGAGAATGATGAAGTCAAATTCAAGTCCTACTGCCCAAAGCACAGCTCACACAGGAAACCCGAGGAGGGCCTGGGTGAAGGAGCAGCCCAGGAGAATGGGGCCCCTGAGAGTTCTCCCCAGAGCCCTCTGGAGCCCTATGGTAGTCTGGAGCCGAATCGAGAGGAGGCCCACCGGGTGAGTGTTCGCAAGCAGAAGCTACAGCAGCTGGAGGATGAGTTCTACACCTTTGTCAACCTGCTGGATGTGGCCAGGGCGCTGCGGCTGCCTGAGGAAGTGGTGGATTTCCTGTACCAGTACTGGAAGTTGAAGAGGAAGATCAACTTCAACAAGCCCCTCATCACCCCAAAGAAAGACGAAGAGGACAATCTAGCCAAGCGGGAGCAGGATGTCTTGTTTAGGAGGCTGCAGCTGTTCACGCACCTGCGGCAGGACCTGGAGAGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CGGGAGCAGGATGTCTTGTT
60.04
GCACGTAGTAGTCATCCGGG
59.97
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GACAATCTAGCCAAGCGGGA
59.82
GCACGTAGTAGTCATCCGGG
59.97
157
PCR template sequence:
CCCAAAGAAAGACGAAGAGGACAATCTAGCCAAGCGGGAGCAGGATGTCTTGTTTAGGAGGCTGCAGCTGTTCACGCACCTGCGGCAGGACCTGGAGAGGGTGTTTAGGACCGACCTGATCACTGCCATGAAGTTGCATGACTCCTACCAGCTGAACCCGGATGACTACTACGTGCTGGCTGATCCCTGGAGACAGGAGT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
13
Interacting miRNAs (#binding sites)
mmu-miR-134-5p(1), mmu-miR-141-3p(1), mmu-miR-1a-3p(1), mmu-miR-206-3p(1), mmu-miR-30e-5p(1), mmu-miR-34a-5p(1), mmu-miR-214-3p(1), mmu-miR-24-3p(1), mmu-miR-182-5p(1), mmu-miR-34b-5p(1), mmu-miR-207(1), mmu-miR-697(1), mmu-miR-542-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GGACCTGGAGAGGGTGTTTAGGACCG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCJADE1_1365_ORF_1
1.1167
0.457249318
0.999999987
2703
ORF sequence:
ATGAAGTTGCATGACTCCTACCAGCTGAACCCGGATGACTACTACGTGCTGGCTGATCCCTGGAGACAGGAGTGGGAGAAAGGGGTCCAGGTGCCTGTGAGCCCAGGGACCATCCCACAGCCTGTGGCCAGGGTTGTGTCTGAAGAGAAGTCTCTCATGTTCATCAGGCCCAAGAAGTACATCGCGTCGTCCGGCTCTGAGCCCCCAGCGTTAGGCTACGTCGATATCCGGACTCTGGCAGACAGTGTGTGTCGGTATGACCTCAATGATATGGATGCTGCGTGGCTGGAAGTAACCAATGAAGAATTTAAGGAGATGGGGATGCCGGAGCTGGACGAGTACACCATGGAAAGGGTCTTGGAGGAATTCGAACAGCGATGCTATGACAATATGAATCATGCCATAGAGACAGAAGAGGGCTTGGGGATTGAATACGACGAAGACGTTGTCTGCGATGTCTGCCAGTCACCTGATGGCGAGGACGGCAACGAGATGGTGTTCTGTGACAAGTGTAACATCTGTGTGCACCAGGCTTGCTATGGGATCCTCAAGGTGCCAGAGGGCAGTTGGCTATGTCGTACATGTGCCCTGGGAGTTCAGCCAAAATGTTTGCTGTGTCCCAAGAAAGGCGGAGCTATGAAGCCGACCCGCAGCGGAACCAAGTGGGTCCACGTCAGCTGTGCCCTGTGGATCCCTGAGGTAAGCATTGGCAGCCCTGAGAAGATGGAGCCCATCACAAAAGTGTCTCACATTCCCAGCAGCCGGTGGGCGCTTGTGTGCAGCCTCTGCAATGAGAAATTCGGGGCCTCCATACAGTGCTCTGTGAAGAACTGCCGGACAGCCTTCCACGTGACTTGTGCTTTTGACCGTGGCCTGGAGATGAAGACCATATTGGCAGAGAATGATGAAGTCAAATTCAAGTCCTACTGCCCAAAGCACAGCTCACACAGGAAACCCGAGGAGGGCCTGGGTGAAGGAGCAGCCCAGGAGAATGGGGCCCCTGAGAGTTCTCCCCAGAGCCCTCTGGAGCCCTATGGTAGTCTGGAGCCGAATCGAGAGGAGGCCCACCGGGTGAGTGTTCGCAAGCAGAAGCTACAGCAGCTGGAGGATGAGTTCTACACCTTTGTCAACCTGCTGGATGTGGCCAGGGCGCTGCGGCTGCCTGAGGAAGTGGTGGATTTCCTGTACCAGTACTGGAAGTTGAAGAGGAAGATCAACTTCAACAAGCCCCTCATCACCCCAAAGAAAGACGAAGAGGACAATCTAGCCAAGCGGGAGCAGGATGTCTTGTTTAGGAGGCTGCAGCTGTTCACGCACCTGCGGCAGGACCTGGAGAGGGTGTTTAGGACCGACCTGATCACTGCCATGAAGTTGCATGACTCCTACCAGCTGAACCCGGATGACTACTACGTGCTGGCTGATCCCTGGAGACAGGAGTGGGAGAAAGGGGTCCAGGTGCCTGTGAGCCCAGGGACCATCCCACAGCCTGTGGCCAGGGTTGTGTCTGAAGAGAAGTCTCTCATGTTCATCAGGCCCAAGAAGTACATCGCGTCGTCCGGCTCTGAGCCCCCAGCGTTAGGCTACGTCGATATCCGGACTCTGGCAGACAGTGTGTGTCGGTATGACCTCAATGATATGGATGCTGCGTGGCTGGAAGTAACCAATGAAGAATTTAAGGAGATGGGGATGCCGGAGCTGGACGAGTACACCATGGAAAGGGTCTTGGAGGAATTCGAACAGCGATGCTATGACAATATGAATCATGCCATAGAGACAGAAGAGGGCTTGGGGATTGAATACGACGAAGACGTTGTCTGCGATGTCTGCCAGTCACCTGATGGCGAGGACGGCAACGAGATGGTGTTCTGTGACAAGTGTAACATCTGTGTGCACCAGGCTTGCTATGGGATCCTCAAGGTGCCAGAGGGCAGTTGGCTATGTCGTACATGTGCCCTGGGAGTTCAGCCAAAATGTTTGCTGTGTCCCAAGAAAGGCGGAGCTATGAAGCCGACCCGCAGCGGAACCAAGTGGGTCCACGTCAGCTGTGCCCTGTGGATCCCTGAGGTAAGCATTGGCAGCCCTGAGAAGATGGAGCCCATCACAAAAGTGTCTCACATTCCCAGCAGCCGGTGGGCGCTTGTGTGCAGCCTCTGCAATGAGAAATTCGGGGCCTCCATACAGTGCTCTGTGAAGAACTGCCGGACAGCCTTCCACGTGACTTGTGCTTTTGACCGTGGCCTGGAGATGAAGACCATATTGGCAGAGAATGATGAAGTCAAATTCAAGTCCTACTGCCCAAAGCACAGCTCACACAGGAAACCCGAGGAGGGCCTGGGTGAAGGAGCAGCCCAGGAGAATGGGGCCCCTGAGAGTTCTCCCCAGAGCCCTCTGGAGCCCTATGGTAGTCTGGAGCCGAATCGAGAGGAGGCCCACCGGGTGAGTGTTCGCAAGCAGAAGCTACAGCAGCTGGAGGATGAGTTCTACACCTTTGTCAACCTGCTGGATGTGGCCAGGGCGCTGCGGCTGCCTGAGGAAGTGGTGGATTTCCTGTACCAGTACTGGAAGTTGAAGAGGAAGATCAACTTCAACAAGCCCCTCATCACCCCAAAGAAAGACGAAGAGGACAATCTAGCCAAGCGGGAGCAGGATGTCTTGTTTAGGAGGCTGCAGCTGTTCACGCACCTGCGGCAGGACCTGGAGAGG
Peptide sequence:
MKLHDSYQLNPDDYYVLADPWRQEWEKGVQVPVSPGTIPQPVARVVSEEKSLMFIRPKKYIASSGSEPPALGYVDIRTLADSVCRYDLNDMDAAWLEVTNEEFKEMGMPELDEYTMERVLEEFEQRCYDNMNHAIETEEGLGIEYDEDVVCDVCQSPDGEDGNEMVFCDKCNICVHQACYGILKVPEGSWLCRTCALGVQPKCLLCPKKGGAMKPTRSGTKWVHVSCALWIPEVSIGSPEKMEPITKVSHIPSSRWALVCSLCNEKFGASIQCSVKNCRTAFHVTCAFDRGLEMKTILAENDEVKFKSYCPKHSSHRKPEEGLGEGAAQENGAPESSPQSPLEPYGSLEPNREEAHRVSVRKQKLQQLEDEFYTFVNLLDVARALRLPEEVVDFLYQYWKLKRKINFNKPLITPKKDEEDNLAKREQDVLFRRLQLFTHLRQDLERVFRTDLITAMKLHDSYQLNPDDYYVLADPWRQEWEKGVQVPVSPGTIPQPVARVVSEEKSLMFIRPKKYIASSGSEPPALGYVDIRTLADSVCRYDLNDMDAAWLEVTNEEFKEMGMPELDEYTMERVLEEFEQRCYDNMNHAIETEEGLGIEYDEDVVCDVCQSPDGEDGNEMVFCDKCNICVHQACYGILKVPEGSWLCRTCALGVQPKCLLCPKKGGAMKPTRSGTKWVHVSCALWIPEVSIGSPEKMEPITKVSHIPSSRWALVCSLCNEKFGASIQCSVKNCRTAFHVTCAFDRGLEMKTILAENDEVKFKSYCPKHSSHRKPEEGLGEGAAQENGAPESSPQSPLEPYGSLEPNREEAHRVSVRKQKLQQLEDEFYTFVNLLDVARALRLPEEVVDFLYQYWKLKRKINFNKPLITPKKDEEDNLAKREQDVLFRRLQLFTHLRQDLER
IRESfinder result
IRESfinder score
0.268993172
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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