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mmu_circ9930021J03Rik_394
Basic information of circular RNA
PanCircBase ID:
mmu_circ9930021J03Rik_394
mm39_Chr. Position ID:
chr19|29697985|29712605|-
Gene name:
9930021J03Rik
Transcript:
ENSMUST00000175726.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
7,6,5
Exon/intron offsets:
0,2804,14530
Genomic length:
14620
Exon/intron sizes in nt:
188,116,90
Flanking exon/introns:
chr19:29697006-29697985|chr19:29712605-29720932
Splice length:
394
Other database IDs:
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
CTTATTTGCACTAATCTTGATGAACTCAGGGAATTAATCACAAAAATCGAGAATGAACTCAAAGATCTGGAAAACAGTAGAAAAAAATCGGGCAAATGGTACCATCGGAGGCAAGCTGTAAAAGAATTACATAGTACACTAATACGCCTTTTAAATGAATTGCTACCATGGGAACCAAAGTTAATGAAGGCTTTTCAGAGAAACAGGAGCCGCCTGAAGAAAGACTATGATGATTTCCGAAGACAGCCTGATCATGGTCAGTTCACTAGAGAGCTATGGGCTACTGACGAGTGTGAAGGGAACCCTGAGAGAGAGGCTCCTAAAGCCGAGGTCAGTAAGTCTGTAGATGCAGCAGAACCTCTGGACACCCTGGAGAAAGAACAGGAGGGCTCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCTCCTAAAGCCGAGGTCAG
60.18
TCCAGATCTTTGAGTTCATTCTCGA
59.81
150
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AACCCTGAGAGAGAGGCTCC
60.33
TCCAGATCTTTGAGTTCATTCTCGA
59.81
165
PCR template sequence:
GAAGGGAACCCTGAGAGAGAGGCTCCTAAAGCCGAGGTCAGTAAGTCTGTAGATGCAGCAGAACCTCTGGACACCCTGGAGAAAGAACAGGAGGGCTCAGCTTATTTGCACTAATCTTGATGAACTCAGGGAATTAATCACAAAAATCGAGAATGAACTCAAAGATCTGGAAAACAGTAGAAAAAAATCGGGCAAATGGT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-721(1), mmu-miR-29b-2-5p(1), mmu-miR-670-5p(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
CAGGAGGGCTCAGCTTATTTGCACTA
siRNA sets
AAATAAGCTGAGCCCTCCT, AATAAGCTGAGCCCTCCTG, AGTGCAAATAAGCTGAGCC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRC9930021J03RIK_394_ORF_1
0.869
0.12327076
0.510220007
441
ORF sequence:
ATGCAGCAGAACCTCTGGACACCCTGGAGAAAGAACAGGAGGGCTCAGCTTATTTGCACTAATCTTGATGAACTCAGGGAATTAATCACAAAAATCGAGAATGAACTCAAAGATCTGGAAAACAGTAGAAAAAAATCGGGCAAATGGTACCATCGGAGGCAAGCTGTAAAAGAATTACATAGTACACTAATACGCCTTTTAAATGAATTGCTACCATGGGAACCAAAGTTAATGAAGGCTTTTCAGAGAAACAGGAGCCGCCTGAAGAAAGACTATGATGATTTCCGAAGACAGCCTGATCATGGTCAGTTCACTAGAGAGCTATGGGCTACTGACGAGTGTGAAGGGAACCCTGAGAGAGAGGCTCCTAAAGCCGAGGTCAGTAAGTCTGTAGATGCAGCAGAACCTCTGGACACCCTGGAGAAAGAACAGGAGGGCTCA
Peptide sequence:
MQQNLWTPWRKNRRAQLICTNLDELRELITKIENELKDLENSRKKSGKWYHRRQAVKELHSTLIRLLNELLPWEPKLMKAFQRNRSRLKKDYDDFRRQPDHGQFTRELWATDECEGNPEREAPKAEVSKSVDAAEPLDTLEKEQEGS
IRESfinder result
IRESfinder score
0.593605699
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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