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mmu_circTrip12_428
Basic information of circular RNA
PanCircBase ID:
mmu_circTrip12_428
mm39_Chr. Position ID:
chr1|84729600|84735256|-
Gene name:
Trip12
Transcript:
ENSMUST00000027421.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
21,20,19
Exon/intron offsets:
0,2391,5537
Genomic length:
5656
Exon/intron sizes in nt:
10,12,08,119
Flanking exon/introns:
chr1:84729434-84729600|chr1:84735256-84735442
Splice length:
428
Other database IDs:
circBase: hsa_circ_0058562
Human Ortholog IDs:
Mature spliced Sequence:
TCACATTGCTTCAATGCTATCCAGCCAAGACCTGAAGATAGTAGTTGGAGCTCTTCAGATGGCAGAAATCCTAATGCAAAAGTTACCTGATATTTTTAGTGTTTACTTCAGGAGAGAAGGTGTGATGCATCAAGTCAAACATTTAGCAGAATCAGAGTCTTTGTTGACAAGTCCCCCCAAGGCATGTACAAATGGGTCAGGATCCCTGGGATCTACAACACCAGCCAGCAGTGGGACTGCAACGGCAGCAACCAACGCCTCTGCTGATCTGGGGTCACCTAGCTTGCAGCATAGCAGAGATGATTCTTTGGATCTGAGCCCTCAAGGTCGATTAAGTGATGTTCTCAAGAGAAAACGACTGCCAAAACGAGGGCCAAGAAGGCCAAAATATTCCCCTCCAAGAGATGATGACAAAGTAGACAATCAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AAACGACTGCCAAAACGAGG
59.34
CTGCCATCTGAAGAGCTCCA
59.46
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AAACGACTGCCAAAACGAGG
59.34
TCTGCCATCTGAAGAGCTCC
59.17
142
PCR template sequence:
CGATTAAGTGATGTTCTCAAGAGAAAACGACTGCCAAAACGAGGGCCAAGAAGGCCAAAATATTCCCCTCCAAGAGATGATGACAAAGTAGACAATCAAGTCACATTGCTTCAATGCTATCCAGCCAAGACCTGAAGATAGTAGTTGGAGCTCTTCAGATGGCAGAAATCCTAATGCAAAAGTTACCTGATATTTTTAGT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
9
Interacting miRNAs (#binding sites)
mmu-miR-30c-5p(1), mmu-miR-328-3p(1), mmu-miR-298-5p(1), mmu-miR-138-5p(1), mmu-miR-24-3p(1), mmu-miR-541-5p(1), mmu-miR-532-5p(1), mmu-miR-3065-5p(1), mmu-miR-323-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GTAGACAATCAAGTCACATTGCTTCA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTRIP12_428_ORF_1
0.7487
0.015401821
0.363430568
450
ORF sequence:
ATGCTATCCAGCCAAGACCTGAAGATAGTAGTTGGAGCTCTTCAGATGGCAGAAATCCTAATGCAAAAGTTACCTGATATTTTTAGTGTTTACTTCAGGAGAGAAGGTGTGATGCATCAAGTCAAACATTTAGCAGAATCAGAGTCTTTGTTGACAAGTCCCCCCAAGGCATGTACAAATGGGTCAGGATCCCTGGGATCTACAACACCAGCCAGCAGTGGGACTGCAACGGCAGCAACCAACGCCTCTGCTGATCTGGGGTCACCTAGCTTGCAGCATAGCAGAGATGATTCTTTGGATCTGAGCCCTCAAGGTCGATTAAGTGATGTTCTCAAGAGAAAACGACTGCCAAAACGAGGGCCAAGAAGGCCAAAATATTCCCCTCCAAGAGATGATGACAAAGTAGACAATCAAGTCACATTGCTTCAATGCTATCCAGCCAAGACCTGA
Peptide sequence:
MLSSQDLKIVVGALQMAEILMQKLPDIFSVYFRREGVMHQVKHLAESESLLTSPPKACTNGSGSLGSTTPASSGTATAATNASADLGSPSLQHSRDDSLDLSPQGRLSDVLKRKRLPKRGPRRPKYSPPRDDDKVDNQVTLLQCYPAKT
IRESfinder result
IRESfinder score
0.540199231
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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