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mmu_circIpo8_940
Basic information of circular RNA
PanCircBase ID:
mmu_circIpo8_940
mm39_Chr. Position ID:
chr6|148684095|148698264|-
Gene name:
Ipo8
Transcript:
ENSMUST00000048418.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
22,21,20,19,18,17,16
Exon/intron offsets:
0,1904,4097,6473,7199,8843,14043
Genomic length:
14169
Exon/intron sizes in nt:
2,06,22,19,69,81,26,67,000
Flanking exon/introns:
chr6:148678901-148684095|chr6:148698264-148700120
Splice length:
940
Other database IDs:
circAtlas: mmu-Ipo8_0027
Human Ortholog IDs:
Mature spliced Sequence:
GCTGAGATATTTGGTAAAGTTCTTCAGAGTGATGAGTATGAAGAAATTGAAGACAAAACTGTCATGGCCATGGGGATTTTACACACCATCGACACTATCTTAACAGTTGTGGAAGATCATCCAGAGATTATACAGCAGTTGGAGAACATCTGCCTACGAATCATTGATCTTGTTTTACAGAAGCACGTTATTGAATTCTATGAGGAAATCCTTTCCCTGGCATACAATTTAACCTGCCATACCATCTCCCCGCAGATGTGGCAGCTCCTGGGCATTTTATATGAAGTTTTCCAGCAGGATTGCTTCGAGTACTTTACAGACATGATGCCTCTCCTGCATAATTACGTGACAGTAGATACCAACGCTCTGCTGTCAAATCCAAAGCATTTAGAAGTCTTGTTCACAATGTGCAGGAAGGTACTGTGTGGAGAGGCAGGAGAAGATGCCGAGTGCTATGCTGCAAAACTCTTGGAAGTCATCATTCTTCAGTGCAAAGGAAGGGGAATTGACCAGTGTATCCCGCTATTCATTCAACTTGTCTTGGAGAGATTAACACGTGGGGTCAAGACCAGTGAGCTGCGCACAATGTGTCTCCAGGTGGCCATCGCAGCTCTTTACTACAGCCCTGAACTGCTGTTCCATACACTGGAGCAAGTCCAGCTGCCACACAACCCAGGACCCGTCACGTCGCAGTTCATAAACCAGTGGATGAATGACACTGATTACTTCCTGGGACACCATGACCGGAAGATGTGTATAATAGGACTGAGTGTGCTCTTGGAGCTGCAGAACCGACCTCCTGCCGTGGATGCTGTGGCTGCACAGATCCTCCCCTCCATTCTCTTCCTTTTCCTTGGCCTGAAGCAGGTCTGTGCTACACGACAAACGGTAAACCGTGAAAATCACTCAAAAGCAGAGAAAGTCGACATAGAGGAAAATG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CAGGTCTGTGCTACACGACA
59.69
AATCCCCATGGCCATGACAG
60.11
154
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CAGGTCTGTGCTACACGACA
59.69
AAATCCCCATGGCCATGACA
59.66
155
PCR template sequence:
CTCTTCCTTTTCCTTGGCCTGAAGCAGGTCTGTGCTACACGACAAACGGTAAACCGTGAAAATCACTCAAAAGCAGAGAAAGTCGACATAGAGGAAAATGGCTGAGATATTTGGTAAAGTTCTTCAGAGTGATGAGTATGAAGAAATTGAAGACAAAACTGTCATGGCCATGGGGATTTTACACACCATCGACACTATCT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-199a-5p(1), mmu-miR-103-3p(1), mmu-miR-107-3p(1), mmu-miR-207(1), mmu-miR-3470b(1), mmu-miR-296-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ATAGAGGAAAATGGCTGAGATATTTG
siRNA sets
ATATCTCAGCCATTTTCCT, AAATATCTCAGCCATTTTC, TATCTCAGCCATTTTCCTC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCIPO8_940_ORF_1
1.2125
0.235131657
0.991223966
942
ORF sequence:
ATGGCTGAGATATTTGGTAAAGTTCTTCAGAGTGATGAGTATGAAGAAATTGAAGACAAAACTGTCATGGCCATGGGGATTTTACACACCATCGACACTATCTTAACAGTTGTGGAAGATCATCCAGAGATTATACAGCAGTTGGAGAACATCTGCCTACGAATCATTGATCTTGTTTTACAGAAGCACGTTATTGAATTCTATGAGGAAATCCTTTCCCTGGCATACAATTTAACCTGCCATACCATCTCCCCGCAGATGTGGCAGCTCCTGGGCATTTTATATGAAGTTTTCCAGCAGGATTGCTTCGAGTACTTTACAGACATGATGCCTCTCCTGCATAATTACGTGACAGTAGATACCAACGCTCTGCTGTCAAATCCAAAGCATTTAGAAGTCTTGTTCACAATGTGCAGGAAGGTACTGTGTGGAGAGGCAGGAGAAGATGCCGAGTGCTATGCTGCAAAACTCTTGGAAGTCATCATTCTTCAGTGCAAAGGAAGGGGAATTGACCAGTGTATCCCGCTATTCATTCAACTTGTCTTGGAGAGATTAACACGTGGGGTCAAGACCAGTGAGCTGCGCACAATGTGTCTCCAGGTGGCCATCGCAGCTCTTTACTACAGCCCTGAACTGCTGTTCCATACACTGGAGCAAGTCCAGCTGCCACACAACCCAGGACCCGTCACGTCGCAGTTCATAAACCAGTGGATGAATGACACTGATTACTTCCTGGGACACCATGACCGGAAGATGTGTATAATAGGACTGAGTGTGCTCTTGGAGCTGCAGAACCGACCTCCTGCCGTGGATGCTGTGGCTGCACAGATCCTCCCCTCCATTCTCTTCCTTTTCCTTGGCCTGAAGCAGGTCTGTGCTACACGACAAACGGTAAACCGTGAAAATCACTCAAAAGCAGAGAAAGTCGACATAGAGGAAAAT
Peptide sequence:
MAEIFGKVLQSDEYEEIEDKTVMAMGILHTIDTILTVVEDHPEIIQQLENICLRIIDLVLQKHVIEFYEEILSLAYNLTCHTISPQMWQLLGILYEVFQQDCFEYFTDMMPLLHNYVTVDTNALLSNPKHLEVLFTMCRKVLCGEAGEDAECYAAKLLEVIILQCKGRGIDQCIPLFIQLVLERLTRGVKTSELRTMCLQVAIAALYYSPELLFHTLEQVQLPHNPGPVTSQFINQWMNDTDYFLGHHDRKMCIIGLSVLLELQNRPPAVDAVAAQILPSILFLFLGLKQVCATRQTVNRENHSKAEKVDIEEN
IRESfinder result
IRESfinder score
0.639806649
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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