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mmu_circCtnnbl1_642
Basic information of circular RNA
PanCircBase ID:
mmu_circCtnnbl1_642
mm39_Chr. Position ID:
chr2|157659674|157713108|+
Gene name:
Ctnnbl1
Transcript:
ENSMUST00000029178.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
8,9,10,11,12,13
Exon/intron offsets:
0,296,1699,18755,50545,53353
Genomic length:
53434
Exon/intron sizes in nt:
73,59,149,182,98,81
Flanking exon/introns:
chr2:157651476-157659674|chr2:157713108-157726052
Splice length:
642
Other database IDs:
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_133563
Human Ortholog IDs:
Mature spliced Sequence:
GCCAAGATGCCCTTCGATGCCAACAAGCTGTACTGTAGTGAAGTGCTGGCCATCCTCCTCCAGGACAATGACGAAAACAGGGAATTGCTGGGAGAGCTGGATGGCATTGACGTGCTTCTTCAGCAGTTATCCGTATTTAAAAGACACAACCCCAGCACCGCTGAGGAGCAGGAAATGATGGAGAACCTGTTCGATGCGCTCTGTTCCTGCTTAATGCTCAGCTCCAATCGAGAGCGCTTCCTGAAGGGCGAGGGGCTGCAGCTCATGAACCTCATGCTCAGGGAGAAGAAGGTCTCCCGGAGCAGCGCCCTGAAGGTGCTGGACCATGCCATGATTGGGCCTGAAGGCACAGACAACTGCCACAAGTTTGTTGACATTCTTGGCTTACGGACCATCTTTCCACTCTTCATGAAGTCTCCTCGGAAAATCAAGAAGGTGGGAACCACAGAGAAGGAGCATGAAGAGCATGTCTGTTCGATCCTGGCTTCCCTCCTGCGCAACCTGAGAGGGCAGCAGCGGACCCGGCTTCTGAATAAATTTACGGAGAACGACAGTGAGAAGGTTGACAGACTAATGGAGCTGCATTTTAAATATCTCAGCGCAATGCAGGTGGCCGACAAGAAGATTGAAGGGGAGAAACAT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGAGAACGACAGTGAGAAGGT
59.39
TGGCCAGCACTTCACTACAG
59.96
152
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGAGAACGACAGTGAGAAGGT
59.39
GGCCAGCACTTCACTACAGT
59.96
151
PCR template sequence:
GGAGAACGACAGTGAGAAGGTTGACAGACTAATGGAGCTGCATTTTAAATATCTCAGCGCAATGCAGGTGGCCGACAAGAAGATTGAAGGGGAGAAACATGCCAAGATGCCCTTCGATGCCAACAAGCTGTACTGTAGTGAAGTGCTGGCCATCCTCCTCCAGGACAATGACGAAAACAGGGAATTGCTGGGAGAGCTGG
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-1a-3p(1), mmu-miR-139-5p(1), mmu-miR-495-3p(1), mmu-miR-136-5p(1), mmu-miR-351-5p(1), mmu-miR-670-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AGGGGAGAAACATGCCAAGATGCCCT
siRNA sets
ATCTTGGCATGTTTCTCCC, CATCTTGGCATGTTTCTCC, TCTTGGCATGTTTCTCCCC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCTNNBL1_642_ORF_1
1.3114
0.454833419
0.999738211
1278
ORF sequence:
ATGCCCTTCGATGCCAACAAGCTGTACTGTAGTGAAGTGCTGGCCATCCTCCTCCAGGACAATGACGAAAACAGGGAATTGCTGGGAGAGCTGGATGGCATTGACGTGCTTCTTCAGCAGTTATCCGTATTTAAAAGACACAACCCCAGCACCGCTGAGGAGCAGGAAATGATGGAGAACCTGTTCGATGCGCTCTGTTCCTGCTTAATGCTCAGCTCCAATCGAGAGCGCTTCCTGAAGGGCGAGGGGCTGCAGCTCATGAACCTCATGCTCAGGGAGAAGAAGGTCTCCCGGAGCAGCGCCCTGAAGGTGCTGGACCATGCCATGATTGGGCCTGAAGGCACAGACAACTGCCACAAGTTTGTTGACATTCTTGGCTTACGGACCATCTTTCCACTCTTCATGAAGTCTCCTCGGAAAATCAAGAAGGTGGGAACCACAGAGAAGGAGCATGAAGAGCATGTCTGTTCGATCCTGGCTTCCCTCCTGCGCAACCTGAGAGGGCAGCAGCGGACCCGGCTTCTGAATAAATTTACGGAGAACGACAGTGAGAAGGTTGACAGACTAATGGAGCTGCATTTTAAATATCTCAGCGCAATGCAGGTGGCCGACAAGAAGATTGAAGGGGAGAAACATGCCAAGATGCCCTTCGATGCCAACAAGCTGTACTGTAGTGAAGTGCTGGCCATCCTCCTCCAGGACAATGACGAAAACAGGGAATTGCTGGGAGAGCTGGATGGCATTGACGTGCTTCTTCAGCAGTTATCCGTATTTAAAAGACACAACCCCAGCACCGCTGAGGAGCAGGAAATGATGGAGAACCTGTTCGATGCGCTCTGTTCCTGCTTAATGCTCAGCTCCAATCGAGAGCGCTTCCTGAAGGGCGAGGGGCTGCAGCTCATGAACCTCATGCTCAGGGAGAAGAAGGTCTCCCGGAGCAGCGCCCTGAAGGTGCTGGACCATGCCATGATTGGGCCTGAAGGCACAGACAACTGCCACAAGTTTGTTGACATTCTTGGCTTACGGACCATCTTTCCACTCTTCATGAAGTCTCCTCGGAAAATCAAGAAGGTGGGAACCACAGAGAAGGAGCATGAAGAGCATGTCTGTTCGATCCTGGCTTCCCTCCTGCGCAACCTGAGAGGGCAGCAGCGGACCCGGCTTCTGAATAAATTTACGGAGAACGACAGTGAGAAGGTTGACAGACTAATGGAGCTGCATTTTAAATATCTCAGCGCAATGCAGGTGGCCGACAAGAAGATTGAAGGGGAGAAACAT
Peptide sequence:
MPFDANKLYCSEVLAILLQDNDENRELLGELDGIDVLLQQLSVFKRHNPSTAEEQEMMENLFDALCSCLMLSSNRERFLKGEGLQLMNLMLREKKVSRSSALKVLDHAMIGPEGTDNCHKFVDILGLRTIFPLFMKSPRKIKKVGTTEKEHEEHVCSILASLLRNLRGQQRTRLLNKFTENDSEKVDRLMELHFKYLSAMQVADKKIEGEKHAKMPFDANKLYCSEVLAILLQDNDENRELLGELDGIDVLLQQLSVFKRHNPSTAEEQEMMENLFDALCSCLMLSSNRERFLKGEGLQLMNLMLREKKVSRSSALKVLDHAMIGPEGTDNCHKFVDILGLRTIFPLFMKSPRKIKKVGTTEKEHEEHVCSILASLLRNLRGQQRTRLLNKFTENDSEKVDRLMELHFKYLSAMQVADKKIEGEKH
IRESfinder result
IRESfinder score
0.259176505
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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