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mmu_circMia3_398
Basic information of circular RNA
PanCircBase ID:
mmu_circMia3_398
mm39_Chr. Position ID:
chr1|183114963|183116406|-
Gene name:
Mia3
Transcript:
ENSMUST00000194543.4
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
18,17,16,15
Exon/intron offsets:
0,294,473,1331
Genomic length:
1443
Exon/intron sizes in nt:
1,39,91,56,112
Flanking exon/introns:
chr1:183113781-183114963|chr1:183116406-183116484
Splice length:
398
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GCTTTGACTAATTGCATCACACAGCTGAATCGGTTAGAATGTGAACTTGAATCTGAGGATCCAGATAAAGGAGGAAATGAGTCAGATGATCTGGCCAATGGAGAAACGGGAGGTGACCGGAGCGAGAAGATAAGAAATAGAATTAAGCAGATGATGGACGTCTCTCGGACACAAACTGCAGTCTCAATAGTTGAAGAGGATCTAAAACTTTTACAGCTTAAGCTAAGAGCATCGATGTCCACTAAATGTAACCTGGAAGACCAAATCAAGAAATTAGAAGATGACCGCAGCTCGCTGCAGACTGCTAAAGCTGGGTTGGAAGACGAGTGCAAAACTCTGAGGCAGAAAGTGGAGATCCTGAATGAGCTGTACCAGCAGAAGGAGATGGCGCTGCAGAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AAGCTGGGTTGGAAGACGAG
59.96
TCCTCCTTTATCTGGATCCTCAGA
59.83
166
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AAGCTGGGTTGGAAGACGAG
59.96
TGGATCCTCAGATTCAAGTTCACA
59.71
154
PCR template sequence:
AGACTGCTAAAGCTGGGTTGGAAGACGAGTGCAAAACTCTGAGGCAGAAAGTGGAGATCCTGAATGAGCTGTACCAGCAGAAGGAGATGGCGCTGCAGAAGCTTTGACTAATTGCATCACACAGCTGAATCGGTTAGAATGTGAACTTGAATCTGAGGATCCAGATAAAGGAGGAAATGAGTCAGATGATCTGGCCAATG
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-23b-3p(1), mmu-miR-92a-3p(1), mmu-miR-23a-3p(1), mmu-miR-136-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TGGCGCTGCAGAAGCTTTGACTAATT
siRNA sets
AATTAGTCAAAGCTTCTGC, ATTAGTCAAAGCTTCTGCA, TTAGTCAAAGCTTCTGCAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCMIA3_398_ORF_1
1.1125
0.32084229
0.489771296
255
ORF sequence:
ATGATGGACGTCTCTCGGACACAAACTGCAGTCTCAATAGTTGAAGAGGATCTAAAACTTTTACAGCTTAAGCTAAGAGCATCGATGTCCACTAAATGTAACCTGGAAGACCAAATCAAGAAATTAGAAGATGACCGCAGCTCGCTGCAGACTGCTAAAGCTGGGTTGGAAGACGAGTGCAAAACTCTGAGGCAGAAAGTGGAGATCCTGAATGAGCTGTACCAGCAGAAGGAGATGGCGCTGCAGAAGCTTTGA
Peptide sequence:
MMDVSRTQTAVSIVEEDLKLLQLKLRASMSTKCNLEDQIKKLEDDRSSLQTAKAGLEDECKTLRQKVEILNELYQQKEMALQKL
IRESfinder result
IRESfinder score
0.278956096
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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