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mmu_circIft52_589
Basic information of circular RNA
PanCircBase ID:
mmu_circIft52_589
mm39_Chr. Position ID:
chr2|162867807|162878633|+
Gene name:
Ift52
Transcript:
ENSMUST00000018002.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
5,6,7,8,9,10
Exon/intron offsets:
0,2143,3847,5293,7347,10671
Genomic length:
10826
Exon/intron sizes in nt:
7,67,21,27,90,69,155
Flanking exon/introns:
chr2:162867380-162867807|chr2:162878633-162882546
Splice length:
589
Other database IDs:
circBase: hsa_circ_0060441
Human Ortholog IDs:
Mature spliced Sequence:
ATGCTGTGGTTAGAAACGTGTATTACAAGTACTTCCATCCTAAGGAAGCTCTGGTTTCAGACGGAGTGTTGAACAGAGAAATTAGCCGAGCTGCAGGAAAGGCTGTGCCTGGAGTCATTGATGAAGAGAACAGTGGGAACAATGCCCAGGCTCTCACCTTTGTCTACCCTTTTGGTGCCACATTGAGCGTCATGAAGCCAGCAGTGGCCGTGCTATCCACAGGCTCTGTCTGCTTCCCACTGAACAGACCCATTCTAGCTTTCTATCACTCAAAGAACCAAGGTTTTGGAAAGCTGGCAGTGCTTGGTTCGTGTCATATGTTCAGTGACCAATATTTAGATAAAGAAGAAAATAGCAAAATTATGGATGTTGTGTTCCAGTGGCTTACAACAGGAGACATCCACCTCAACCAGATTGATGCTGAGGACCCAGAGATTTCCGACTACACGATGGTACCAGACACAGCCACCCTCTCAGAGCAGCTCCGAGTGTGTCTGCAGGAGGGCGATGAGAACCCCCGTGACTTTACCACCCTCTTTGACCTGTCCATTTACCAGCTGGACACCACCTGCCTGCCCAAGGTCATCAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCCGTGACTTTACCACCCTC
60.04
TCCTGCAGCTCGGCTAATTT
59.75
171
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCCGTGACTTTACCACCCTC
60.04
TTCCTGCAGCTCGGCTAATT
59.75
172
PCR template sequence:
TGTGTCTGCAGGAGGGCGATGAGAACCCCCGTGACTTTACCACCCTCTTTGACCTGTCCATTTACCAGCTGGACACCACCTGCCTGCCCAAGGTCATCAAATGCTGTGGTTAGAAACGTGTATTACAAGTACTTCCATCCTAAGGAAGCTCTGGTTTCAGACGGAGTGTTGAACAGAGAAATTAGCCGAGCTGCAGGAAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-326-3p(1), mmu-miR-425-5p(1), mmu-miR-224-5p(1), mmu-miR-335-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CCAAGGTCATCAAATGCTGTGGTTAG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCIFT52_589_ORF_1
0.7932
0.201558995
0.946531621
810
ORF sequence:
ATGTTGTGTTCCAGTGGCTTACAACAGGAGACATCCACCTCAACCAGATTGATGCTGAGGACCCAGAGATTTCCGACTACACGATGGTACCAGACACAGCCACCCTCTCAGAGCAGCTCCGAGTGTGTCTGCAGGAGGGCGATGAGAACCCCCGTGACTTTACCACCCTCTTTGACCTGTCCATTTACCAGCTGGACACCACCTGCCTGCCCAAGGTCATCAAATGCTGTGGTTAGAAACGTGTATTACAAGTACTTCCATCCTAAGGAAGCTCTGGTTTCAGACGGAGTGTTGAACAGAGAAATTAGCCGAGCTGCAGGAAAGGCTGTGCCTGGAGTCATTGATGAAGAGAACAGTGGGAACAATGCCCAGGCTCTCACCTTTGTCTACCCTTTTGGTGCCACATTGAGCGTCATGAAGCCAGCAGTGGCCGTGCTATCCACAGGCTCTGTCTGCTTCCCACTGAACAGACCCATTCTAGCTTTCTATCACTCAAAGAACCAAGGTTTTGGAAAGCTGGCAGTGCTTGGTTCGTGTCATATGTTCAGTGACCAATATTTAGATAAAGAAGAAAATAGCAAAATTATGGATGTTGTGTTCCAGTGGCTTACAACAGGAGACATCCACCTCAACCAGATTGATGCTGAGGACCCAGAGATTTCCGACTACACGATGGTACCAGACACAGCCACCCTCTCAGAGCAGCTCCGAGTGTGTCTGCAGGAGGGCGATGAGAACCCCCGTGACTTTACCACCCTCTTTGACCTGTCCATTTACCAGCTGGACACCACCTGCCTGCCCAAGGTCATC
Peptide sequence:
MLCSSGLQQETSTSTRLMLRTQRFPTTRWYQTQPPSQSSSECVCRRAMRTPVTLPPSLTCPFTSWTPPACPRSSNAVVRNVYYKYFHPKEALVSDGVLNREISRAAGKAVPGVIDEENSGNNAQALTFVYPFGATLSVMKPAVAVLSTGSVCFPLNRPILAFYHSKNQGFGKLAVLGSCHMFSDQYLDKEENSKIMDVVFQWLTTGDIHLNQIDAEDPEISDYTMVPDTATLSEQLRVCLQEGDENPRDFTTLFDLSIYQLDTTCLPKVI
IRESfinder result
IRESfinder score
0.704103864
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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