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mmu_circBbx_1243
Basic information of circular RNA
PanCircBase ID:
mmu_circBbx_1243
mm39_Chr. Position ID:
chr16|50044650|50071757|-
Gene name:
Bbx
Transcript:
ENSMUST00000138166.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
11,10,9,8
Exon/intron offsets:
0,16566,23494,27026
Genomic length:
27107
Exon/intron sizes in nt:
1006,81,75,81
Flanking exon/introns:
chr16:50043748-50044650|chr16:50071757-50082778
Splice length:
1243
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GCATCCTCTGGGACTTGCAGGCCTGATATTTCAGAATCACCTGAGTTGCGTCAGAAGTCACCATTGTTTCAGTTTGCCGAGATATCTTCAAGGACATCGCACCCCGATGCGCCTTCAAAACAGTGTCAAGCGTCAGCCTTGTTTCAGTTTGCAGAGATCTCTTCAAGCACTTCGCAGTTGGGTGGCACTGAGCCTGTGAAACGCTGTGGAAATTCTGCACTCTTTCAACTGGCAGAGATGTGTCTGGCATCAGAGGGGGTGAAAATGGAAGACACAAAACTAATAAAATCAAAAGAGTCAGATGGAGGAAGAATTGAGGAAATAGAAAAGGGGAAGGAAGAGAGAGGCACAGAAGTGGAGAAAACCACTGAAACTTCGTTCCAGAAGGAAGCAGAATTTGGGAAGTCAGCTAAGGGCAACGTGAGAGAGTCTAAGGACTTAAGAGACATCGAACAGCTACAGATGGATAATGTCATGGCTATCAAAGTGGAAGACCCCAAAGAAATTAGGAAGGAGCCAGAGGATGATCAGAAATACAGTCACTTCCCTGATTTTTCTTACTCTGCCAGTAGCAAGATAATAATTAGTGGTGTCCCCAGTAGAAAGGACCACATGTGCCATCCTCACGGAATTATGATCATTGAGGACCCAACCACGCTAAACAAACCAGAGAAGATAAAGAAGAAAAAGAAGAAAAACAAACTGGATCGACACGGAAATGACAAATCCACACCCAAGAAGACGTGCAAGAAGAGGCAGTCTTCAGAATCTGACATCGAGAGTGTCATGTACACCATCGAAGCTGTGGCAAAAGGAGACTGGGGTGTTGACAAACTCGGAGAAACCCCAAGAAAGAAAGTCCGCCCCTCCTCAAGTGGCAAGGGAGGCATTTTGGATGCCAAGCCACCAAAGAAAAAAGTGAAATCCAAGGAGAAGAAAGTTTCCAAGGAGAAGTGCTCAGACATCACCAAAGAGTCTCGACCTCCAGATTTCCTTAGCATTTCTGCCAGCAAGAGTGTTCCTGGGGAGGTGCCAGAGGGCATAAAAGCAGAACCCTTGACCCCTACCGAGGATGCACTGCCACCTAGCCTACCAGGACAGGCTAAGCCTGAGGATAGTGATTGTCACAGAAAAACGGAGACCTGTGGCTCCAGGAAATCTGAGAGGTCTTGCAAAGGTGCTCTTTATAAAACCCTGGTGTCCGAGGGCATGCTCACCTCTCTCCGAGCTAATGTTGACAGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGCTCCAGGAAATCTGAGAGG
59.86
TGGTGACTTCTGACGCAACT
59.54
160
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGTGGCTCCAGGAAATCTGAG
59.72
TGGTGACTTCTGACGCAACT
59.54
163
PCR template sequence:
TGTGGCTCCAGGAAATCTGAGAGGTCTTGCAAAGGTGCTCTTTATAAAACCCTGGTGTCCGAGGGCATGCTCACCTCTCTCCGAGCTAATGTTGACAGAGGCATCCTCTGGGACTTGCAGGCCTGATATTTCAGAATCACCTGAGTTGCGTCAGAAGTCACCATTGTTTCAGTTTGCCGAGATATCTTCAAGGACATCGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
13
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-140-5p(1), mmu-miR-34a-5p(1), mmu-miR-148b-3p(1), mmu-miR-18a-5p(1), mmu-miR-24-3p(1), mmu-miR-149-5p(1), mmu-miR-136-5p(1), mmu-miR-29b-1-5p(1), mmu-miR-342-5p(1), mmu-miR-207(1), mmu-miR-484(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
AATGTTGACAGAGGCATCCTCTGGGA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCBBX_1243_ORF_1
0.7683
0.206864721
0.999231258
1413
ORF sequence:
ATGCACTGCCACCTAGCCTACCAGGACAGGCTAAGCCTGAGGATAGTGATTGTCACAGAAAAACGGAGACCTGTGGCTCCAGGAAATCTGAGAGGTCTTGCAAAGGTGCTCTTTATAAAACCCTGGTGTCCGAGGGCATGCTCACCTCTCTCCGAGCTAATGTTGACAGAGGCATCCTCTGGGACTTGCAGGCCTGATATTTCAGAATCACCTGAGTTGCGTCAGAAGTCACCATTGTTTCAGTTTGCCGAGATATCTTCAAGGACATCGCACCCCGATGCGCCTTCAAAACAGTGTCAAGCGTCAGCCTTGTTTCAGTTTGCAGAGATCTCTTCAAGCACTTCGCAGTTGGGTGGCACTGAGCCTGTGAAACGCTGTGGAAATTCTGCACTCTTTCAACTGGCAGAGATGTGTCTGGCATCAGAGGGGGTGAAAATGGAAGACACAAAACTAATAAAATCAAAAGAGTCAGATGGAGGAAGAATTGAGGAAATAGAAAAGGGGAAGGAAGAGAGAGGCACAGAAGTGGAGAAAACCACTGAAACTTCGTTCCAGAAGGAAGCAGAATTTGGGAAGTCAGCTAAGGGCAACGTGAGAGAGTCTAAGGACTTAAGAGACATCGAACAGCTACAGATGGATAATGTCATGGCTATCAAAGTGGAAGACCCCAAAGAAATTAGGAAGGAGCCAGAGGATGATCAGAAATACAGTCACTTCCCTGATTTTTCTTACTCTGCCAGTAGCAAGATAATAATTAGTGGTGTCCCCAGTAGAAAGGACCACATGTGCCATCCTCACGGAATTATGATCATTGAGGACCCAACCACGCTAAACAAACCAGAGAAGATAAAGAAGAAAAAGAAGAAAAACAAACTGGATCGACACGGAAATGACAAATCCACACCCAAGAAGACGTGCAAGAAGAGGCAGTCTTCAGAATCTGACATCGAGAGTGTCATGTACACCATCGAAGCTGTGGCAAAAGGAGACTGGGGTGTTGACAAACTCGGAGAAACCCCAAGAAAGAAAGTCCGCCCCTCCTCAAGTGGCAAGGGAGGCATTTTGGATGCCAAGCCACCAAAGAAAAAAGTGAAATCCAAGGAGAAGAAAGTTTCCAAGGAGAAGTGCTCAGACATCACCAAAGAGTCTCGACCTCCAGATTTCCTTAGCATTTCTGCCAGCAAGAGTGTTCCTGGGGAGGTGCCAGAGGGCATAAAAGCAGAACCCTTGACCCCTACCGAGGATGCACTGCCACCTAGCCTACCAGGACAGGCTAAGCCTGAGGATAGTGATTGTCACAGAAAAACGGAGACCTGTGGCTCCAGGAAATCTGAGAGGTCTTGCAAAGGTGCTCTTTATAAAACCCTGGTGTCCGAGGGCATGCTCACCTCTCTCCGAGCTAATGTTGACAGA
Peptide sequence:
MHCHLAYQDRLSLRIVIVTEKRRPVAPGNLRGLAKVLFIKPWCPRACSPLSELMLTEASSGTCRPDISESPELRQKSPLFQFAEISSRTSHPDAPSKQCQASALFQFAEISSSTSQLGGTEPVKRCGNSALFQLAEMCLASEGVKMEDTKLIKSKESDGGRIEEIEKGKEERGTEVEKTTETSFQKEAEFGKSAKGNVRESKDLRDIEQLQMDNVMAIKVEDPKEIRKEPEDDQKYSHFPDFSYSASSKIIISGVPSRKDHMCHPHGIMIIEDPTTLNKPEKIKKKKKKNKLDRHGNDKSTPKKTCKKRQSSESDIESVMYTIEAVAKGDWGVDKLGETPRKKVRPSSSGKGGILDAKPPKKKVKSKEKKVSKEKCSDITKESRPPDFLSISASKSVPGEVPEGIKAEPLTPTEDALPPSLPGQAKPEDSDCHRKTETCGSRKSERSCKGALYKTLVSEGMLTSLRANVDR
IRESfinder result
IRESfinder score
0.509249854
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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