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mmu_circTox_756
Basic information of circular RNA
PanCircBase ID:
mmu_circTox_756
mm39_Chr. Position ID:
chr4|6722137|6823147|-
Gene name:
Tox
Transcript:
ENSMUST00000039987.4
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
5,4,3
Exon/intron offsets:
0,19148,100767
Genomic length:
101010
Exon/intron sizes in nt:
231,282,243
Flanking exon/introns:
chr4:6711538-6722137|chr4:6823147-6842360
Splice length:
756
Other database IDs:
circAtlas: mmu-Tox_0013
Human Ortholog IDs:
Mature spliced Sequence:
TCCTACCCTGGACCAAGTCTGGAAAGTGAAGATTTTAACATCCCACCCATCACGCCTCCCTCCCTCCCTGACCACTCTCTGGTGCACCTGAATGAGGTAGAATCCGGTTACCACTCTCTGTGTCACCCCATGAATCACAATGGCCTGCTCCCGTTCCATCCACAAACCATGGACCTGCCAGAGATCACGGTGTCCAACATGCTGGGCCAAGATGGCGCACTGCTCTCCAATTCCATCTCTGTGATGCAAGAGATTGGGAACGCAGAAGGAGCTCAGTACAGCTCCCATCCTCAGATGGCAGCCATGAGGCCGAGAGGCCAGCCTACAGACATCAGACAGCAGGCAAGCATGATGCAGCCCGGCCAGCTGACCACCATCAACCAGTCGCAGCTGAGCGCACAGTTGGGCTTGAACATGGGAGGAACCAATGTGGCCCACAACTCCCCTTCTCCACCCGGGAGCAAGTCTGCAACCCCTTCCCCATCCAGCTCAGTGCATGAGGATGAGTGTGAGGATGCCTCCAAGATCAATGGAGGAGAGAAGCGGCCTGCCTCTGATATGGGGAAAAAACCCAAAACTCCCAAGAAGAAGAAGAAGAAGGATCCTAATGAGCCCCAGAAGCCTGTGTCTGCCTATGCTTTGTTCTTTCGTGATACCCAGGCTGCCATTAAGGGCCAGAATCCAAATGCTACTTTTGGTGAAGTATCGAAGATTGTGGCATCAATGTGGGATGGCCTAGGAGAAGAACAGAAACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGGGCCAGAATCCAAATGCT
59.66
GCGTGATGGGTGGGATGTTA
60.11
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGGGCCAGAATCCAAATGCT
59.66
TTCAGGTGCACCAGAGAGTG
59.61
178
PCR template sequence:
CCAGGCTGCCATTAAGGGCCAGAATCCAAATGCTACTTTTGGTGAAGTATCGAAGATTGTGGCATCAATGTGGGATGGCCTAGGAGAAGAACAGAAACAGTCCTACCCTGGACCAAGTCTGGAAAGTGAAGATTTTAACATCCCACCCATCACGCCTCCCTCCCTCCCTGACCACTCTCTGGTGCACCTGAATGAGGTAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-298-5p(1), mmu-miR-136-5p(1), mmu-miR-207(1)
siRNAs for circular RNA silencing
Junction sequence
AGAACAGAAACAGTCCTACCCTGGAC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTOX_756_ORF_1
1.135
0.361727801
0.999749394
1383
ORF sequence:
ATGAATCACAATGGCCTGCTCCCGTTCCATCCACAAACCATGGACCTGCCAGAGATCACGGTGTCCAACATGCTGGGCCAAGATGGCGCACTGCTCTCCAATTCCATCTCTGTGATGCAAGAGATTGGGAACGCAGAAGGAGCTCAGTACAGCTCCCATCCTCAGATGGCAGCCATGAGGCCGAGAGGCCAGCCTACAGACATCAGACAGCAGGCAAGCATGATGCAGCCCGGCCAGCTGACCACCATCAACCAGTCGCAGCTGAGCGCACAGTTGGGCTTGAACATGGGAGGAACCAATGTGGCCCACAACTCCCCTTCTCCACCCGGGAGCAAGTCTGCAACCCCTTCCCCATCCAGCTCAGTGCATGAGGATGAGTGTGAGGATGCCTCCAAGATCAATGGAGGAGAGAAGCGGCCTGCCTCTGATATGGGGAAAAAACCCAAAACTCCCAAGAAGAAGAAGAAGAAGGATCCTAATGAGCCCCAGAAGCCTGTGTCTGCCTATGCTTTGTTCTTTCGTGATACCCAGGCTGCCATTAAGGGCCAGAATCCAAATGCTACTTTTGGTGAAGTATCGAAGATTGTGGCATCAATGTGGGATGGCCTAGGAGAAGAACAGAAACAGTCCTACCCTGGACCAAGTCTGGAAAGTGAAGATTTTAACATCCCACCCATCACGCCTCCCTCCCTCCCTGACCACTCTCTGGTGCACCTGAATGAGGTAGAATCCGGTTACCACTCTCTGTGTCACCCCATGAATCACAATGGCCTGCTCCCGTTCCATCCACAAACCATGGACCTGCCAGAGATCACGGTGTCCAACATGCTGGGCCAAGATGGCGCACTGCTCTCCAATTCCATCTCTGTGATGCAAGAGATTGGGAACGCAGAAGGAGCTCAGTACAGCTCCCATCCTCAGATGGCAGCCATGAGGCCGAGAGGCCAGCCTACAGACATCAGACAGCAGGCAAGCATGATGCAGCCCGGCCAGCTGACCACCATCAACCAGTCGCAGCTGAGCGCACAGTTGGGCTTGAACATGGGAGGAACCAATGTGGCCCACAACTCCCCTTCTCCACCCGGGAGCAAGTCTGCAACCCCTTCCCCATCCAGCTCAGTGCATGAGGATGAGTGTGAGGATGCCTCCAAGATCAATGGAGGAGAGAAGCGGCCTGCCTCTGATATGGGGAAAAAACCCAAAACTCCCAAGAAGAAGAAGAAGAAGGATCCTAATGAGCCCCAGAAGCCTGTGTCTGCCTATGCTTTGTTCTTTCGTGATACCCAGGCTGCCATTAAGGGCCAGAATCCAAATGCTACTTTTGGTGAAGTATCGAAGATTGTGGCATCAATGTGGGATGGCCTAGGAGAAGAACAGAAACAG
Peptide sequence:
MNHNGLLPFHPQTMDLPEITVSNMLGQDGALLSNSISVMQEIGNAEGAQYSSHPQMAAMRPRGQPTDIRQQASMMQPGQLTTINQSQLSAQLGLNMGGTNVAHNSPSPPGSKSATPSPSSSVHEDECEDASKINGGEKRPASDMGKKPKTPKKKKKKDPNEPQKPVSAYALFFRDTQAAIKGQNPNATFGEVSKIVASMWDGLGEEQKQSYPGPSLESEDFNIPPITPPSLPDHSLVHLNEVESGYHSLCHPMNHNGLLPFHPQTMDLPEITVSNMLGQDGALLSNSISVMQEIGNAEGAQYSSHPQMAAMRPRGQPTDIRQQASMMQPGQLTTINQSQLSAQLGLNMGGTNVAHNSPSPPGSKSATPSPSSSVHEDECEDASKINGGEKRPASDMGKKPKTPKKKKKKDPNEPQKPVSAYALFFRDTQAAIKGQNPNATFGEVSKIVASMWDGLGEEQKQ
IRESfinder result
IRESfinder score
0.404155418
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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