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mmu_circRad50_432
Basic information of circular RNA
PanCircBase ID:
mmu_circRad50_432
mm39_Chr. Position ID:
chr11|53566728|53570343|-
Gene name:
Rad50
Transcript:
ENSMUST00000020649.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
17,16,15
Exon/intron offsets:
0,2963,3488
Genomic length:
3615
Exon/intron sizes in nt:
11,11,94,127
Flanking exon/introns:
chr11:53565822-53566728|chr11:53570343-53570859
Splice length:
432
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
ATGGAGCTGAAAGATGTTGAAAGGAAAATTGCACAGCAGGCAGCTAAGCTGCAGGGAGTAGACTTGGACCGGACTGTCCAGCAGGTTAACCAGGAAAAGCAGGAAAAGCAGCACAGGCTGGATACAGTTACCAGTAAGATTGAATTGAACCGTAAGCTTATACAGGACCAGCAGGAACAAATCCAACACCTGAAAAGTAAAACAAATGAGCTGAAGTCAGAGAAGCTGCAGATAGCCACCAATTTGCAACGGCGCCAGCAAATGGAGGAGCAGAGTGTGGAATTATCCACTGAAGTCCAGTCTTTAAACAGAGAAATAAAGGATGCTAAAGAACAAATAAGCCCTTTGGAGACAGCATTGGAAAAGTTGCAGCAGGAAAAAGAAGAATTAATCCACAGAAAACATACAAGTAACAAAATGGCTCAGGATAAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGCCCTTTGGAGACAGCATT
59.59
CCAAGTCTACTCCCTGCAGC
60.11
160
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AAGCCCTTTGGAGACAGCAT
59.59
CCAAGTCTACTCCCTGCAGC
60.11
161
PCR template sequence:
ACAAATAAGCCCTTTGGAGACAGCATTGGAAAAGTTGCAGCAGGAAAAAGAAGAATTAATCCACAGAAAACATACAAGTAACAAAATGGCTCAGGATAAAATGGAGCTGAAAGATGTTGAAAGGAAAATTGCACAGCAGGCAGCTAAGCTGCAGGGAGTAGACTTGGACCGGACTGTCCAGCAGGTTAACCAGGAAAAGC
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-136-5p(1), mmu-miR-22-3p(1), mmu-miR-370-3p(1), mmu-miR-297a-5p(1), mmu-miR-27a-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GGCTCAGGATAAAATGGAGCTGAAAG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCRAD50_432_ORF_1
1.2359
0.28279757
0.988181275
864
ORF sequence:
ATGGAGCTGAAAGATGTTGAAAGGAAAATTGCACAGCAGGCAGCTAAGCTGCAGGGAGTAGACTTGGACCGGACTGTCCAGCAGGTTAACCAGGAAAAGCAGGAAAAGCAGCACAGGCTGGATACAGTTACCAGTAAGATTGAATTGAACCGTAAGCTTATACAGGACCAGCAGGAACAAATCCAACACCTGAAAAGTAAAACAAATGAGCTGAAGTCAGAGAAGCTGCAGATAGCCACCAATTTGCAACGGCGCCAGCAAATGGAGGAGCAGAGTGTGGAATTATCCACTGAAGTCCAGTCTTTAAACAGAGAAATAAAGGATGCTAAAGAACAAATAAGCCCTTTGGAGACAGCATTGGAAAAGTTGCAGCAGGAAAAAGAAGAATTAATCCACAGAAAACATACAAGTAACAAAATGGCTCAGGATAAAATGGAGCTGAAAGATGTTGAAAGGAAAATTGCACAGCAGGCAGCTAAGCTGCAGGGAGTAGACTTGGACCGGACTGTCCAGCAGGTTAACCAGGAAAAGCAGGAAAAGCAGCACAGGCTGGATACAGTTACCAGTAAGATTGAATTGAACCGTAAGCTTATACAGGACCAGCAGGAACAAATCCAACACCTGAAAAGTAAAACAAATGAGCTGAAGTCAGAGAAGCTGCAGATAGCCACCAATTTGCAACGGCGCCAGCAAATGGAGGAGCAGAGTGTGGAATTATCCACTGAAGTCCAGTCTTTAAACAGAGAAATAAAGGATGCTAAAGAACAAATAAGCCCTTTGGAGACAGCATTGGAAAAGTTGCAGCAGGAAAAAGAAGAATTAATCCACAGAAAACATACAAGTAACAAAATGGCTCAGGATAAA
Peptide sequence:
MELKDVERKIAQQAAKLQGVDLDRTVQQVNQEKQEKQHRLDTVTSKIELNRKLIQDQQEQIQHLKSKTNELKSEKLQIATNLQRRQQMEEQSVELSTEVQSLNREIKDAKEQISPLETALEKLQQEKEELIHRKHTSNKMAQDKMELKDVERKIAQQAAKLQGVDLDRTVQQVNQEKQEKQHRLDTVTSKIELNRKLIQDQQEQIQHLKSKTNELKSEKLQIATNLQRRQQMEEQSVELSTEVQSLNREIKDAKEQISPLETALEKLQQEKEELIHRKHTSNKMAQDK
IRESfinder result
IRESfinder score
0.431315457
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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