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mmu_circTomm70a_357
Basic information of circular RNA
PanCircBase ID:
mmu_circTomm70a_357
mm39_Chr. Position ID:
chr16|56958392|56961149|+
Gene name:
Tomm70a
Transcript:
ENSMUST00000166897.3
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
5,6
Exon/intron offsets:
0,2549
Genomic length:
2757
Exon/intron sizes in nt:
1,49,208
Flanking exon/introns:
chr16:56957170-56958392|chr16:56961149-56963083
Splice length:
357
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
AACCGTGAACCTCTGATGCCATCTCCACAGTTTATTAAATCTTACTTCAGTTCTTTCACCGATGATATAATTTCTCAACCAATGCTTAAGGGAGAGAAGTCTGATGAAGATAAAGACAAGGAGGGAGAGGCTTTAGAAGTGAAAGAAAATTCTGGGTATTTGAAAGCTAAACAATATATGGAAGAAGAAAACTATGACAAAATCATAAGTGAATGTTCAAAGGAAATAGATGCTCAAGGCAAATACATGGCAGAAGCATTACTTCTGCGAGCCACCTTCTACCTACTTATTGGCAGTGCCAACGCGGCCAAGCCTGACTTAGATAAGGTCATCAGTTTGAAGGAAGCTAATGTGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCGAGCCACCTTCTACCTAC
59.9
TCATCGGTGAAAGAACTGAAGT
57.66
156
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TTCTGCGAGCCACCTTCTAC
59.75
TCATCGGTGAAAGAACTGAAGT
57.66
160
PCR template sequence:
ATTACTTCTGCGAGCCACCTTCTACCTACTTATTGGCAGTGCCAACGCGGCCAAGCCTGACTTAGATAAGGTCATCAGTTTGAAGGAAGCTAATGTGAAGAACCGTGAACCTCTGATGCCATCTCCACAGTTTATTAAATCTTACTTCAGTTCTTTCACCGATGATATAATTTCTCAACCAATGCTTAAGGGAGAGAAGT
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-181b-5p(1), mmu-miR-96-5p(1), mmu-miR-539-5p(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AGCTAATGTGAAGAACCGTGAACCTC
siRNA sets
ACGGTTCTTCACATTAGCT, CACGGTTCTTCACATTAGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTOMM70A_357_ORF_1
0.9095
0.248689655
0.923616032
699
ORF sequence:
ATGCCATCTCCACAGTTTATTAAATCTTACTTCAGTTCTTTCACCGATGATATAATTTCTCAACCAATGCTTAAGGGAGAGAAGTCTGATGAAGATAAAGACAAGGAGGGAGAGGCTTTAGAAGTGAAAGAAAATTCTGGGTATTTGAAAGCTAAACAATATATGGAAGAAGAAAACTATGACAAAATCATAAGTGAATGTTCAAAGGAAATAGATGCTCAAGGCAAATACATGGCAGAAGCATTACTTCTGCGAGCCACCTTCTACCTACTTATTGGCAGTGCCAACGCGGCCAAGCCTGACTTAGATAAGGTCATCAGTTTGAAGGAAGCTAATGTGAAGAACCGTGAACCTCTGATGCCATCTCCACAGTTTATTAAATCTTACTTCAGTTCTTTCACCGATGATATAATTTCTCAACCAATGCTTAAGGGAGAGAAGTCTGATGAAGATAAAGACAAGGAGGGAGAGGCTTTAGAAGTGAAAGAAAATTCTGGGTATTTGAAAGCTAAACAATATATGGAAGAAGAAAACTATGACAAAATCATAAGTGAATGTTCAAAGGAAATAGATGCTCAAGGCAAATACATGGCAGAAGCATTACTTCTGCGAGCCACCTTCTACCTACTTATTGGCAGTGCCAACGCGGCCAAGCCTGACTTAGATAAGGTCATCAGTTTGAAGGAAGCTAATGTGAAG
Peptide sequence:
MPSPQFIKSYFSSFTDDIISQPMLKGEKSDEDKDKEGEALEVKENSGYLKAKQYMEEENYDKIISECSKEIDAQGKYMAEALLLRATFYLLIGSANAAKPDLDKVISLKEANVKNREPLMPSPQFIKSYFSSFTDDIISQPMLKGEKSDEDKDKEGEALEVKENSGYLKAKQYMEEENYDKIISECSKEIDAQGKYMAEALLLRATFYLLIGSANAAKPDLDKVISLKEANVK
IRESfinder result
IRESfinder score
0.473594528
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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