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mmu_circArpc1a_331
Basic information of circular RNA
PanCircBase ID:
mmu_circArpc1a_331
mm39_Chr. Position ID:
chr5|145032861|145034133|+
Gene name:
Arpc1a
Transcript:
ENSMUST00000031625.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
4,5
Exon/intron offsets:
0,1164
Genomic length:
1272
Exon/intron sizes in nt:
2,23,108
Flanking exon/introns:
chr5:145029372-145032861|chr5:145034133-145037866
Splice length:
331
Other database IDs:
CIRCpedia: MMU_CIRCpedia_9566, circAtlas: mmu-Arpc1a_0005
circBase: hsa_circ_0081332, CIRCpedia: HSA_CIRCpedia_59482
Human Ortholog IDs:
Mature spliced Sequence:
GTATTGACTGGGCTCCTAAGAGCGACCGTATTGTCACTTGTGGGGCAGACCGCAACGCCTATGTCTGGAGTCAGAAAGATGGCATCTGGAAGCCCACCCTGGTGATCCTGAGGATTAACCGTGCAGCCACTTTTGTGAAGTGGTCCCCACTTGAGAACAAGTTTGCTGTGGGGAGCGGAGCCCGGCTCATCTCTGTCTGTTACTTTGAGTCTGAGAATGACTGGTGGGTGAGCAAGCACATTAAGAAGCCGATCCGCTCCACAGTCCTCAGCTTGGACTGGCATCCCAACAATGTTTTGCTGGCTGCAGGCTCCTGTGACTTCAAATGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTCCACAGTCCTCAGCTTGG
60.04
ACTCCAGACATAGGCGTTGC
60.11
146
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TTAAGAAGCCGATCCGCTCC
59.9
ACTCCAGACATAGGCGTTGC
60.11
162
PCR template sequence:
GCAAGCACATTAAGAAGCCGATCCGCTCCACAGTCCTCAGCTTGGACTGGCATCCCAACAATGTTTTGCTGGCTGCAGGCTCCTGTGACTTCAAATGCAGGTATTGACTGGGCTCCTAAGAGCGACCGTATTGTCACTTGTGGGGCAGACCGCAACGCCTATGTCTGGAGTCAGAAAGATGGCATCTGGAAGCCCACCCT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
1
Interacting miRNAs (#binding sites)
mmu-miR-218-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ACTTCAAATGCAGGTATTGACTGGGC
siRNA sets
AGTCAATACCTGCATTTGA, CAATACCTGCATTTGAAGT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCARPC1A_331_ORF_1
0.7424
0.279287904
0.481680511
369
ORF sequence:
ATGTTTTGCTGGCTGCAGGCTCCTGTGACTTCAAATGCAGGTATTGACTGGGCTCCTAAGAGCGACCGTATTGTCACTTGTGGGGCAGACCGCAACGCCTATGTCTGGAGTCAGAAAGATGGCATCTGGAAGCCCACCCTGGTGATCCTGAGGATTAACCGTGCAGCCACTTTTGTGAAGTGGTCCCCACTTGAGAACAAGTTTGCTGTGGGGAGCGGAGCCCGGCTCATCTCTGTCTGTTACTTTGAGTCTGAGAATGACTGGTGGGTGAGCAAGCACATTAAGAAGCCGATCCGCTCCACAGTCCTCAGCTTGGACTGGCATCCCAACAATGTTTTGCTGGCTGCAGGCTCCTGTGACTTCAAATGC
Peptide sequence:
MFCWLQAPVTSNAGIDWAPKSDRIVTCGADRNAYVWSQKDGIWKPTLVILRINRAATFVKWSPLENKFAVGSGARLISVCYFESENDWWVSKHIKKPIRSTVLSLDWHPNNVLLAAGSCDFKC
IRESfinder result
IRESfinder score
0.425760648
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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