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mmu_circFbxo38_753
Basic information of circular RNA
PanCircBase ID:
mmu_circFbxo38_753
mm39_Chr. Position ID:
chr18|62652824|62660341|-
Gene name:
Fbxo38
Transcript:
ENSMUST00000048688.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
12,11,10,9,8
Exon/intron offsets:
0,929,2596,6378,7423
Genomic length:
7517
Exon/intron sizes in nt:
214,143,171,131,94
Flanking exon/introns:
chr18:62651682-62652824|chr18:62660341-62662622
Splice length:
753
Other database IDs:
circBase: hsa_circ_0074478, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_373342
Human Ortholog IDs:
Mature spliced Sequence:
GTGGTTTTAGGAACTTGCACACTATTGTCTTAGGAGCTTGCAAGAATGCCCTGGAAGTAGACCTTGGCTACCTCATCATCACTGCTGCGCGAAGGTTACATGAAGTTCGCATCCAGCCTTCTTTAACCAAAGATGGTGTCTTTTCTGCCCTAAAGATGGCAGAATTGGAGTTTCCCCAGTTTGAAACCCTTCATCTGGGATATGTAGATGAGTTCTTGCTACAGAGCAGAATGGCGAATGCAGATTTGGTGAAGTATGGCTTGGCTGATGTGGTAGAAAATCCTGGTATCATTACTGATATAGGGATGAAGGCAGTCAATGAAGTTTTTTCCTGTATCAAATATCTGGCAATTTATAACTGTCCTCATCTACACAACCCATACAATTGGATCTCAGACCACTCGAGGTGGATGCGACTGGTTGATATCAACCTCGTGCGGTGCCATGCTTTGAAGCTGGATTCTTTTGGCCAGTTTGTTGAATTATTGCCCAGCCTGGAATTTATTTCTCTGGACCAGATGTTCCGTGAGCCACCCAAGGGCTGTGCTCGAGTTGGTCTGAGTGCAGGAACTGGAATTGGGGTTTCCTCAGCGCTTGTCAGCAACCAGAATTCCAACAATGACAATGACAATAATGCTCCAAATAACAACGCCAACCTCCATGATAACAATCACCATCACCCAGATGATTCGGATGACGACAATGACTTTCGTCCAGACCTACAAGCAGGAGAGGCACAATTTGCAGCCGATG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACCCAGATGATTCGGATGACG
59.93
CCAAGGTCTACTTCCAGGGC
59.75
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACCCAGATGATTCGGATGACG
59.93
GCCAAGGTCTACTTCCAGGG
59.75
143
PCR template sequence:
AACCTCCATGATAACAATCACCATCACCCAGATGATTCGGATGACGACAATGACTTTCGTCCAGACCTACAAGCAGGAGAGGCACAATTTGCAGCCGATGGTGGTTTTAGGAACTTGCACACTATTGTCTTAGGAGCTTGCAAGAATGCCCTGGAAGTAGACCTTGGCTACCTCATCATCACTGCTGCGCGAAGGTTACA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
11
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-let-7a-5p(1), mmu-let-7e-5p(1), mmu-miR-205-5p(1), mmu-let-7c-5p(1), mmu-let-7d-5p(1), mmu-miR-98-5p(1), mmu-miR-539-5p(1), mmu-miR-188-3p(1), mmu-miR-1904(1), mmu-miR-193b-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TTTGCAGCCGATGGTGGTTTTAGGAA
siRNA sets
TTCCTAAAACCACCATCGG, TCCTAAAACCACCATCGGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCFBXO38_753_ORF_1
1.1206
0.205350603
0.999381285
1350
ORF sequence:
ATGGCAGAATTGGAGTTTCCCCAGTTTGAAACCCTTCATCTGGGATATGTAGATGAGTTCTTGCTACAGAGCAGAATGGCGAATGCAGATTTGGTGAAGTATGGCTTGGCTGATGTGGTAGAAAATCCTGGTATCATTACTGATATAGGGATGAAGGCAGTCAATGAAGTTTTTTCCTGTATCAAATATCTGGCAATTTATAACTGTCCTCATCTACACAACCCATACAATTGGATCTCAGACCACTCGAGGTGGATGCGACTGGTTGATATCAACCTCGTGCGGTGCCATGCTTTGAAGCTGGATTCTTTTGGCCAGTTTGTTGAATTATTGCCCAGCCTGGAATTTATTTCTCTGGACCAGATGTTCCGTGAGCCACCCAAGGGCTGTGCTCGAGTTGGTCTGAGTGCAGGAACTGGAATTGGGGTTTCCTCAGCGCTTGTCAGCAACCAGAATTCCAACAATGACAATGACAATAATGCTCCAAATAACAACGCCAACCTCCATGATAACAATCACCATCACCCAGATGATTCGGATGACGACAATGACTTTCGTCCAGACCTACAAGCAGGAGAGGCACAATTTGCAGCCGATGGTGGTTTTAGGAACTTGCACACTATTGTCTTAGGAGCTTGCAAGAATGCCCTGGAAGTAGACCTTGGCTACCTCATCATCACTGCTGCGCGAAGGTTACATGAAGTTCGCATCCAGCCTTCTTTAACCAAAGATGGTGTCTTTTCTGCCCTAAAGATGGCAGAATTGGAGTTTCCCCAGTTTGAAACCCTTCATCTGGGATATGTAGATGAGTTCTTGCTACAGAGCAGAATGGCGAATGCAGATTTGGTGAAGTATGGCTTGGCTGATGTGGTAGAAAATCCTGGTATCATTACTGATATAGGGATGAAGGCAGTCAATGAAGTTTTTTCCTGTATCAAATATCTGGCAATTTATAACTGTCCTCATCTACACAACCCATACAATTGGATCTCAGACCACTCGAGGTGGATGCGACTGGTTGATATCAACCTCGTGCGGTGCCATGCTTTGAAGCTGGATTCTTTTGGCCAGTTTGTTGAATTATTGCCCAGCCTGGAATTTATTTCTCTGGACCAGATGTTCCGTGAGCCACCCAAGGGCTGTGCTCGAGTTGGTCTGAGTGCAGGAACTGGAATTGGGGTTTCCTCAGCGCTTGTCAGCAACCAGAATTCCAACAATGACAATGACAATAATGCTCCAAATAACAACGCCAACCTCCATGATAACAATCACCATCACCCAGATGATTCGGATGACGACAATGACTTTCGTCCAGACCTACAAGCAGGAGAGGCACAATTTGCAGCCGAT
Peptide sequence:
MAELEFPQFETLHLGYVDEFLLQSRMANADLVKYGLADVVENPGIITDIGMKAVNEVFSCIKYLAIYNCPHLHNPYNWISDHSRWMRLVDINLVRCHALKLDSFGQFVELLPSLEFISLDQMFREPPKGCARVGLSAGTGIGVSSALVSNQNSNNDNDNNAPNNNANLHDNNHHHPDDSDDDNDFRPDLQAGEAQFAADGGFRNLHTIVLGACKNALEVDLGYLIITAARRLHEVRIQPSLTKDGVFSALKMAELEFPQFETLHLGYVDEFLLQSRMANADLVKYGLADVVENPGIITDIGMKAVNEVFSCIKYLAIYNCPHLHNPYNWISDHSRWMRLVDINLVRCHALKLDSFGQFVELLPSLEFISLDQMFREPPKGCARVGLSAGTGIGVSSALVSNQNSNNDNDNNAPNNNANLHDNNHHHPDDSDDDNDFRPDLQAGEAQFAAD
IRESfinder result
IRESfinder score
0.475741797
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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