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mmu_circArpc3_368
Basic information of circular RNA
PanCircBase ID:
mmu_circArpc3_368
mm39_Chr. Position ID:
chr5|122539709|122543241|+
Gene name:
Arpc3
Transcript:
ENSMUST00000102525.11
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
3,4,5,6
Exon/intron offsets:
0,1712,2477,3437
Genomic length:
3532
Exon/intron sizes in nt:
77,69,127,95
Flanking exon/introns:
chr5:122534979-122539709|chr5:122543241-122543931
Splice length:
368
Other database IDs:
circAtlas: mmu-Arpc3_0007
Human Ortholog IDs:
Mature spliced Sequence:
CCAAAGACACGGACATTGTGGATGAAGCCATCTACTACTTCAAGGCCAATGTCTTCTTCAAGAACTATGAAATTAAGAATGAAGCGGACAGGACATTGATCTACATCACACTCTACATTTCTGAGTGTCTAAAGAAACTCCAAAAGTGCAACTCCAAGAGCCAAGGCGAGAAGGAAATGTACACGCTAGGAATCACCAACTTCCCTATCCCCGGAGAGCCTGGCTTTCCTCTCAACGCCATTTATGCCAAGCCTGCGAGCAAACAGGAGGACGAGATGATGCGGGCGTACCTCCAGCAGCTGAGGCAAGAGACCGGACTGAGGCTGTGTGAGAAGGTTTTTGACCCTCAGAGTGATAAACCCAGCAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGACTGAGGCTGTGTGAGAA
59.32
TCAATGTCCTGTCCGCTTCA
59.32
153
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTGAGGCTGTGTGAGAAGGT
59.32
TCAATGTCCTGTCCGCTTCA
59.32
150
PCR template sequence:
GGACGAGATGATGCGGGCGTACCTCCAGCAGCTGAGGCAAGAGACCGGACTGAGGCTGTGTGAGAAGGTTTTTGACCCTCAGAGTGATAAACCCAGCAAGCCAAAGACACGGACATTGTGGATGAAGCCATCTACTACTTCAAGGCCAATGTCTTCTTCAAGAACTATGAAATTAAGAATGAAGCGGACAGGACATTGAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
7
Interacting miRNAs (#binding sites)
mmu-let-7a-5p(1), mmu-let-7b-5p(1), mmu-miR-135a-5p(1), mmu-let-7c-5p(1), mmu-let-7d-5p(1), mmu-miR-342-3p(1), mmu-miR-574-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TAAACCCAGCAAGCCAAAGACACGGA
siRNA sets
GTGTCTTTGGCTTGCTGGG, CGTGTCTTTGGCTTGCTGG, TGTCTTTGGCTTGCTGGGT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCARPC3_368_ORF_1
0.9608
0.204912198
0.369157327
291
ORF sequence:
ATGTACACGCTAGGAATCACCAACTTCCCTATCCCCGGAGAGCCTGGCTTTCCTCTCAACGCCATTTATGCCAAGCCTGCGAGCAAACAGGAGGACGAGATGATGCGGGCGTACCTCCAGCAGCTGAGGCAAGAGACCGGACTGAGGCTGTGTGAGAAGGTTTTTGACCCTCAGAGTGATAAACCCAGCAAGCCAAAGACACGGACATTGTGGATGAAGCCATCTACTACTTCAAGGCCAATGTCTTCTTCAAGAACTATGAAATTAAGAATGAAGCGGACAGGACATTGA
Peptide sequence:
MYTLGITNFPIPGEPGFPLNAIYAKPASKQEDEMMRAYLQQLRQETGLRLCEKVFDPQSDKPSKPKTRTLWMKPSTTSRPMSSSRTMKLRMKRTGH
IRESfinder result
IRESfinder score
0.271242763
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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