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mmu_circLonp1_506
Basic information of circular RNA
PanCircBase ID:
mmu_circLonp1_506
mm39_Chr. Position ID:
chr17|56927513|56930225|-
Gene name:
Lonp1
Transcript:
ENSMUST00000233732.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
5,4,3,2
Exon/intron offsets:
0,1410,1920,2623
Genomic length:
2712
Exon/intron sizes in nt:
62,235,120,89
Flanking exon/introns:
chr17:56927352-56927513|chr17:56930225-56933365
Splice length:
506
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTTAAAAATAAGAAGTTGGTTGAGCTCCTGAGAAGGAAAGTCCGACTTGCACAGCCCTATGTTGGCGTCTTCCTAAAGAGAGATGACAACAATGAGTCGGACGTGGTGGAGAGCCTGGATGAAATCTACCATACGGGAACATTCGCTCAGATTCATGAGATGCAGGACCTCGGAGACAAGTTGCGAATGATTGTCACTGGCCACAGAAGGATTCACATCAGCCGGCAGCTGGAGGTGGAACCAGAGGGGCTTGAGCCAGAGGCAGAGAAACAAAAGTCCAGGAGGAAGCTGAAGCGAGGCAAGAAAGAGGTGGAGGATGAGCTGGGCCCCAAGCCCCAGCTGGAGATGGTGACCGAGGCTGCCACTGACACATCCAAGGAGGTGCTCATGGTGGAGGTTGAGAATGTAGCCCATGAAGACTTCCAGGTCACAGAGGAAGTGAAGGCCCTGACTGCAGAGATTGTGAAGACCATTCGGGATATCATCGCCTTGAACCCTCTGTACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCCCATGAAGACTTCCAGGT
59.67
GCTGTGCAAGTCGGACTTTC
59.76
153
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CAGAGGAAGTGAAGGCCCTG
60.04
AGGAAGACGCCAACATAGGG
59.46
150
PCR template sequence:
TAGCCCATGAAGACTTCCAGGTCACAGAGGAAGTGAAGGCCCTGACTGCAGAGATTGTGAAGACCATTCGGGATATCATCGCCTTGAACCCTCTGTACAGGTTAAAAATAAGAAGTTGGTTGAGCTCCTGAGAAGGAAAGTCCGACTTGCACAGCCCTATGTTGGCGTCTTCCTAAAGAGAGATGACAACAATGAGTCGG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-221-3p(1), mmu-miR-22-3p(1), mmu-miR-490-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ACCCTCTGTACAGGTTAAAAATAAGA
siRNA sets
TTATTTTTAACCTGTACAG, TATTTTTAACCTGTACAGA, CTTATTTTTAACCTGTACA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCLONP1_506_ORF_1
1.1877
0.471836557
0.831855477
378
ORF sequence:
ATGCAGGACCTCGGAGACAAGTTGCGAATGATTGTCACTGGCCACAGAAGGATTCACATCAGCCGGCAGCTGGAGGTGGAACCAGAGGGGCTTGAGCCAGAGGCAGAGAAACAAAAGTCCAGGAGGAAGCTGAAGCGAGGCAAGAAAGAGGTGGAGGATGAGCTGGGCCCCAAGCCCCAGCTGGAGATGGTGACCGAGGCTGCCACTGACACATCCAAGGAGGTGCTCATGGTGGAGGTTGAGAATGTAGCCCATGAAGACTTCCAGGTCACAGAGGAAGTGAAGGCCCTGACTGCAGAGATTGTGAAGACCATTCGGGATATCATCGCCTTGAACCCTCTGTACAGGTTAAAAATAAGAAGTTGGTTGAGCTCCTGA
Peptide sequence:
MQDLGDKLRMIVTGHRRIHISRQLEVEPEGLEPEAEKQKSRRKLKRGKKEVEDELGPKPQLEMVTEAATDTSKEVLMVEVENVAHEDFQVTEEVKALTAEIVKTIRDIIALNPLYRLKIRSWLSS
IRESfinder result
IRESfinder score
0.30606857
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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