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mmu_circTomm70a_925
Basic information of circular RNA
PanCircBase ID:
mmu_circTomm70a_925
mm39_Chr. Position ID:
chr16|56957060|56968193|+
Gene name:
Tomm70a
Transcript:
ENSMUST00000166897.3
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
4,5,6,7,8,9,10
Exon/intron offsets:
0,1332,3881,6023,7993,9332,11035
Genomic length:
11133
Exon/intron sizes in nt:
110,149,208,135,108,117,98
Flanking exon/introns:
chr16:56955142-56957060|chr16:56968193-56970182
Splice length:
925
Other database IDs:
circAtlas: mmu-Tomm70a_0010
Human Ortholog IDs:
Mature spliced Sequence:
ACGTCACTGCTGTGTGTATATTAGAAGGGTTTCAAAATGAGCAGAGCATGCTGTTAGCTGATAAAGTTCTTAAACTTCTTGGGAAAGAGAATGCCAAAGAAAAATACAAGAACCGTGAACCTCTGATGCCATCTCCACAGTTTATTAAATCTTACTTCAGTTCTTTCACCGATGATATAATTTCTCAACCAATGCTTAAGGGAGAGAAGTCTGATGAAGATAAAGACAAGGAGGGAGAGGCTTTAGAAGTGAAAGAAAATTCTGGGTATTTGAAAGCTAAACAATATATGGAAGAAGAAAACTATGACAAAATCATAAGTGAATGTTCAAAGGAAATAGATGCTCAAGGCAAATACATGGCAGAAGCATTACTTCTGCGAGCCACCTTCTACCTACTTATTGGCAGTGCCAACGCGGCCAAGCCTGACTTAGATAAGGTCATCAGTTTGAAGGAAGCTAATGTGAAGCTTCGAGCAAATGCCCTTATCAAGAGAGGCACCATGTGCATGCAGCAGCAACAACCTATGCTGTCTACTCAGGACTTCAACATGGCTGCCGAGATCGATCCTATGAACTCAGACGTTTATCACCACCGAGGACAGCTGAAAATTCTGCTGGATCTGGTTGAAGAAGCAGTGGCGGATTTTGATGCATGTATCAGATTAAGACCAAAGTTTGCTTTGGCGCAGGCTCAGAAGTGTTTTGCATTGTATCGCCAGGCATATACAGCAAACAATTCTTCGCAAGTCCAGGCAGCTATGAAAGGTTTTGAAGAGATCATAAAGAAATTTCCAAGATGTGCTGAAGGCTATGCACTTTATGCCCAGGCATTAACAGATCAACAACAGTTTGGTAAAGCTGATGAAATGTATGATAAGTGTATTGATTTGGAACCAGATAATGCTACAACTTATGTTCATAAAGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCAACAACAGTTTGGTAAAGCTGA
59.3
TCAGCTAACAGCATGCTCTG
57.98
148
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACAACAGTTTGGTAAAGCTGATGA
59.11
TCAGCTAACAGCATGCTCTG
57.98
145
PCR template sequence:
AGGCATTAACAGATCAACAACAGTTTGGTAAAGCTGATGAAATGTATGATAAGTGTATTGATTTGGAACCAGATAATGCTACAACTTATGTTCATAAAGGACGTCACTGCTGTGTGTATATTAGAAGGGTTTCAAAATGAGCAGAGCATGCTGTTAGCTGATAAAGTTCTTAAACTTCTTGGGAAAGAGAATGCCAAAGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
10
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-20b-5p(1), mmu-miR-20a-5p(1), mmu-miR-17-5p(1), mmu-miR-181b-5p(1), mmu-miR-22-3p(1), mmu-miR-96-5p(1), mmu-miR-5101(1), mmu-miR-539-5p(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ATGTTCATAAAGGACGTCACTGCTGT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTOMM70A_925_ORF_1
0.9778
0.165779602
0.987033384
987
ORF sequence:
ATGAAATGTATGATAAGTGTATTGATTTGGAACCAGATAATGCTACAACTTATGTTCATAAAGGACGTCACTGCTGTGTGTATATTAGAAGGGTTTCAAAATGAGCAGAGCATGCTGTTAGCTGATAAAGTTCTTAAACTTCTTGGGAAAGAGAATGCCAAAGAAAAATACAAGAACCGTGAACCTCTGATGCCATCTCCACAGTTTATTAAATCTTACTTCAGTTCTTTCACCGATGATATAATTTCTCAACCAATGCTTAAGGGAGAGAAGTCTGATGAAGATAAAGACAAGGAGGGAGAGGCTTTAGAAGTGAAAGAAAATTCTGGGTATTTGAAAGCTAAACAATATATGGAAGAAGAAAACTATGACAAAATCATAAGTGAATGTTCAAAGGAAATAGATGCTCAAGGCAAATACATGGCAGAAGCATTACTTCTGCGAGCCACCTTCTACCTACTTATTGGCAGTGCCAACGCGGCCAAGCCTGACTTAGATAAGGTCATCAGTTTGAAGGAAGCTAATGTGAAGCTTCGAGCAAATGCCCTTATCAAGAGAGGCACCATGTGCATGCAGCAGCAACAACCTATGCTGTCTACTCAGGACTTCAACATGGCTGCCGAGATCGATCCTATGAACTCAGACGTTTATCACCACCGAGGACAGCTGAAAATTCTGCTGGATCTGGTTGAAGAAGCAGTGGCGGATTTTGATGCATGTATCAGATTAAGACCAAAGTTTGCTTTGGCGCAGGCTCAGAAGTGTTTTGCATTGTATCGCCAGGCATATACAGCAAACAATTCTTCGCAAGTCCAGGCAGCTATGAAAGGTTTTGAAGAGATCATAAAGAAATTTCCAAGATGTGCTGAAGGCTATGCACTTTATGCCCAGGCATTAACAGATCAACAACAGTTTGGTAAAGCTGATGAAATGTATGATAAGTGTATTGATTTGGAACCAGATAATGCTACAACTTATGTTCATAAA
Peptide sequence:
MKCMISVLIWNQIMLQLMFIKDVTAVCILEGFQNEQSMLLADKVLKLLGKENAKEKYKNREPLMPSPQFIKSYFSSFTDDIISQPMLKGEKSDEDKDKEGEALEVKENSGYLKAKQYMEEENYDKIISECSKEIDAQGKYMAEALLLRATFYLLIGSANAAKPDLDKVISLKEANVKLRANALIKRGTMCMQQQQPMLSTQDFNMAAEIDPMNSDVYHHRGQLKILLDLVEEAVADFDACIRLRPKFALAQAQKCFALYRQAYTANNSSQVQAAMKGFEEIIKKFPRCAEGYALYAQALTDQQQFGKADEMYDKCIDLEPDNATTYVHK
IRESfinder result
IRESfinder score
0.431184531
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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