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mmu_circUlk2_514
Basic information of circular RNA
PanCircBase ID:
mmu_circUlk2_514
mm39_Chr. Position ID:
chr11|61690727|61694613|-
Gene name:
Ulk2
Transcript:
ENSMUST00000004920.4
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
18,17,16
Exon/intron offsets:
0,1581,3740
Genomic length:
3886
Exon/intron sizes in nt:
2,87,81,146
Flanking exon/introns:
chr11:61690476-61690727|chr11:61694613-61698887
Splice length:
514
Other database IDs:
circAtlas: mmu-Ulk2_0057
Human Ortholog IDs:
Mature spliced Sequence:
ATCTGCAGTAGTACGAAGGTCTAATACCAGCCCCATGGGCTTCCTCCGGGTTGGGTCCTGCTCCCCTGTACCAGGAGACACAGTGCAGACAGGAGGACGAAGACTCTCTACTGGCTCTTCCAGGCCTTACTCACCATCCCCTTTGGTTGGTACCATTCCTGAACAGTTTAGTCAGTGCTGCTGTGGACATCCTCAGGGCCATGAAGCCAGGAGTAGGCACTCCTCAGGTTCTCCAGTGCCACAGACCCAGGCACCACAGTCACTCTTACTGGGTGCTAGACTGCAGAGTGCACCCACCCTCACCGATATCTATCAGAACAAGCAGAAGCTCAGAAAGCAGCACTCTGACCCTGTGTGTCCGTCCCATGCTGGAGCTGGGTATAGTTACTCACCTCAGCCTAGTCGGCCTGGCAGCCTTGGGACCTCTCCCACCAAGCACACGGGGTCCTCTCCACGGAATTCTGACTGGTTCTTTAAAACTCCTTTACCAACAATCATTGGCTCTCCTACTAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGGTCCTCTCCACGGAATTC
59.82
GTCTGCACTGTGTCTCCTGG
60.32
162
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGGTCCTCTCCACGGAATTC
59.82
CCTGTCTGCACTGTGTCTCC
60.32
165
PCR template sequence:
CCTTGGGACCTCTCCCACCAAGCACACGGGGTCCTCTCCACGGAATTCTGACTGGTTCTTTAAAACTCCTTTACCAACAATCATTGGCTCTCCTACTAAGATCTGCAGTAGTACGAAGGTCTAATACCAGCCCCATGGGCTTCCTCCGGGTTGGGTCCTGCTCCCCTGTACCAGGAGACACAGTGCAGACAGGAGGACGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-16-5p(1), mmu-miR-15a-5p(1), mmu-miR-351-5p(1), mmu-miR-3470b(1), mmu-miR-490-3p(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
CTCTCCTACTAAGATCTGCAGTAGTA
siRNA sets
TACTACTGCAGATCTTAGT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCULK2_514_ORF_1
0.6358
0.018679494
0.877254708
828
ORF sequence:
ATGAAGCCAGGAGTAGGCACTCCTCAGGTTCTCCAGTGCCACAGACCCAGGCACCACAGTCACTCTTACTGGGTGCTAGACTGCAGAGTGCACCCACCCTCACCGATATCTATCAGAACAAGCAGAAGCTCAGAAAGCAGCACTCTGACCCTGTGTGTCCGTCCCATGCTGGAGCTGGGTATAGTTACTCACCTCAGCCTAGTCGGCCTGGCAGCCTTGGGACCTCTCCCACCAAGCACACGGGGTCCTCTCCACGGAATTCTGACTGGTTCTTTAAAACTCCTTTACCAACAATCATTGGCTCTCCTACTAAGATCTGCAGTAGTACGAAGGTCTAATACCAGCCCCATGGGCTTCCTCCGGGTTGGGTCCTGCTCCCCTGTACCAGGAGACACAGTGCAGACAGGAGGACGAAGACTCTCTACTGGCTCTTCCAGGCCTTACTCACCATCCCCTTTGGTTGGTACCATTCCTGAACAGTTTAGTCAGTGCTGCTGTGGACATCCTCAGGGCCATGAAGCCAGGAGTAGGCACTCCTCAGGTTCTCCAGTGCCACAGACCCAGGCACCACAGTCACTCTTACTGGGTGCTAGACTGCAGAGTGCACCCACCCTCACCGATATCTATCAGAACAAGCAGAAGCTCAGAAAGCAGCACTCTGACCCTGTGTGTCCGTCCCATGCTGGAGCTGGGTATAGTTACTCACCTCAGCCTAGTCGGCCTGGCAGCCTTGGGACCTCTCCCACCAAGCACACGGGGTCCTCTCCACGGAATTCTGACTGGTTCTTTAAAACTCCTTTACCAACAATCATTGGCTCTCCTACTAAG
Peptide sequence:
MKPGVGTPQVLQCHRPRHHSHSYWVLDCRVHPPSPISIRTSRSSESSTLTLCVRPMLELGIVTHLSLVGLAALGPLPPSTRGPLHGILTGSLKLLYQQSLALLLRSAVVRRSNTSPMGFLRVGSCSPVPGDTVQTGGRRLSTGSSRPYSPSPLVGTIPEQFSQCCCGHPQGHEARSRHSSGSPVPQTQAPQSLLLGARLQSAPTLTDIYQNKQKLRKQHSDPVCPSHAGAGYSYSPQPSRPGSLGTSPTKHTGSSPRNSDWFFKTPLPTIIGSPTK
IRESfinder result
IRESfinder score
0.725874368
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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