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mmu_circBod1l_1081
Basic information of circular RNA
PanCircBase ID:
mmu_circBod1l_1081
mm39_Chr. Position ID:
chr5|41988787|41995507|-
Gene name:
Bod1l
Transcript:
ENSMUST00000050556.11
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
5,4,3,2
Exon/intron offsets:
0,766,2213,6595
Genomic length:
6720
Exon/intron sizes in nt:
150,615,191,125
Flanking exon/introns:
chr5:41986262-41988787|chr5:41995507-42001274
Splice length:
1081
Other database IDs:
circAtlas: mmu-Bod1l_0003
Human Ortholog IDs:
Mature spliced Sequence:
CCTGCCTATCAGAATCTCAGGCAGAGAGTTGACAACTTCGTTGCAAACCACTTGGCAACTCATACATGGAGTCCCCACCTCAACAAGAACCAACTGAGAAACAATATCCGACAGCAAGTTCTGAAATCAGGAATGCTGGAGTCTGGTATTGACCGAATTATTTCTCAGGTTGTGGATCCAAAGATCAACCACACATTCAGGCCTCAGGTAGAAAAAGCTGTGCACGAGTTCCTGGCCACATTGAATCACAAAGAGGAAGCTGCTGGCAGCACAGCTCCTGATGATGAGAAGCCAGAATCTTCTGTCATTACCCAAGGTGCTCCTGCTCCTGGGCCCAGTGCTAATGTAGCCAGTGATGCCATGTCAATCTTGGAAACCATAACTTCTCTTAACCAAGAAGCTAACGCTGCCAGAGCTTCAACAGAAATGTCAAATGCCAAGGTCAGTGAGAGAACATCCAGAAAACTCTCATCTCAGCCAAGCACTGACGTTAGCACAGACAAGGAGAGAGGCTCAGAAGATGCGACTGAGAGAGAAAAGGCTACCTCTGATTCTGGAGGAGATGGGCTAGAAGCTGCTCTCAAGTCAGAAGAACCCAGTGATCTCCCTTGTCCAGTGGAAGAAACTAAAAATCATATGAAAGAGAATAATAGCTTACTGTTACTAAGTAAGGATGCTCAGCAGGAAAGCACTGACCCAAAAATTAAATCAATGGACAAAGGAGAAAAGAAACCCGATGGTAATGAGAAAGGAGAGAGAAAGAAAGAGAAGAAGGAAAAGACTGAAAAAAAAATTGATCACTCTAAAAGGAATGAAGATACACAGAAAGTGAAAGATGAGAGACAAGCAAAGGACAAAGAAGTGGAGAGCACAAAGCTTCCTTCTGAAAAGAGCAACAGCAGAGCCAGGGCTGCTGAGGGGACAAAAGAAGATTGTTCTTTGTTAGATTCTGATGTGGATGGTCTCACTGATATCACAGTCAGCTCTGTCCACACCAGTGACCTTTCGTCCTTTGAAGAAGACACAGAGGAGGAAGTTGTCGTGTCTGAGAGCATGGAAGAAGGAGAGATTACATCAGAGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACACCAGTGACCTTTCGTCC
59.89
CTTGTTGAGGTGGGGACTCC
59.96
177
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACACCAGTGACCTTTCGTCC
59.89
GCCAAGTGGTTTGCAACGAA
60.18
146
PCR template sequence:
AGCTCTGTCCACACCAGTGACCTTTCGTCCTTTGAAGAAGACACAGAGGAGGAAGTTGTCGTGTCTGAGAGCATGGAAGAAGGAGAGATTACATCAGAGGCCTGCCTATCAGAATCTCAGGCAGAGAGTTGACAACTTCGTTGCAAACCACTTGGCAACTCATACATGGAGTCCCCACCTCAACAAGAACCAACTGAGAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
8
Interacting miRNAs (#binding sites)
mmu-miR-221-3p(1), mmu-miR-222-3p(1), mmu-miR-149-5p(1), mmu-miR-127-5p(1), mmu-miR-29b-2-5p(1), mmu-miR-1187(1), mmu-miR-539-5p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ATTACATCAGAGGCCTGCCTATCAGA
siRNA sets
TCTGATAGGCAGGCCTCTG, ATAGGCAGGCCTCTGATGT, TAGGCAGGCCTCTGATGTA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCBOD1L_1081_ORF_1
1.1246
0.196755782
0.998215297
1209
ORF sequence:
ATGTGGATGGTCTCACTGATATCACAGTCAGCTCTGTCCACACCAGTGACCTTTCGTCCTTTGAAGAAGACACAGAGGAGGAAGTTGTCGTGTCTGAGAGCATGGAAGAAGGAGAGATTACATCAGAGGCCTGCCTATCAGAATCTCAGGCAGAGAGTTGACAACTTCGTTGCAAACCACTTGGCAACTCATACATGGAGTCCCCACCTCAACAAGAACCAACTGAGAAACAATATCCGACAGCAAGTTCTGAAATCAGGAATGCTGGAGTCTGGTATTGACCGAATTATTTCTCAGGTTGTGGATCCAAAGATCAACCACACATTCAGGCCTCAGGTAGAAAAAGCTGTGCACGAGTTCCTGGCCACATTGAATCACAAAGAGGAAGCTGCTGGCAGCACAGCTCCTGATGATGAGAAGCCAGAATCTTCTGTCATTACCCAAGGTGCTCCTGCTCCTGGGCCCAGTGCTAATGTAGCCAGTGATGCCATGTCAATCTTGGAAACCATAACTTCTCTTAACCAAGAAGCTAACGCTGCCAGAGCTTCAACAGAAATGTCAAATGCCAAGGTCAGTGAGAGAACATCCAGAAAACTCTCATCTCAGCCAAGCACTGACGTTAGCACAGACAAGGAGAGAGGCTCAGAAGATGCGACTGAGAGAGAAAAGGCTACCTCTGATTCTGGAGGAGATGGGCTAGAAGCTGCTCTCAAGTCAGAAGAACCCAGTGATCTCCCTTGTCCAGTGGAAGAAACTAAAAATCATATGAAAGAGAATAATAGCTTACTGTTACTAAGTAAGGATGCTCAGCAGGAAAGCACTGACCCAAAAATTAAATCAATGGACAAAGGAGAAAAGAAACCCGATGGTAATGAGAAAGGAGAGAGAAAGAAAGAGAAGAAGGAAAAGACTGAAAAAAAAATTGATCACTCTAAAAGGAATGAAGATACACAGAAAGTGAAAGATGAGAGACAAGCAAAGGACAAAGAAGTGGAGAGCACAAAGCTTCCTTCTGAAAAGAGCAACAGCAGAGCCAGGGCTGCTGAGGGGACAAAAGAAGATTGTTCTTTGTTAGATTCTGATGTGGATGGTCTCACTGATATCACAGTCAGCTCTGTCCACACCAGTGACCTTTCGTCCTTTGAAGAAGACACAGAGGAGGAAGTTGTCGTGTCTGAGAGCATGGAAGAAGGAGAGATTACATCAGAG
Peptide sequence:
MWMVSLISQSALSTPVTFRPLKKTQRRKLSCLRAWKKERLHQRPAYQNLRQRVDNFVANHLATHTWSPHLNKNQLRNNIRQQVLKSGMLESGIDRIISQVVDPKINHTFRPQVEKAVHEFLATLNHKEEAAGSTAPDDEKPESSVITQGAPAPGPSANVASDAMSILETITSLNQEANAARASTEMSNAKVSERTSRKLSSQPSTDVSTDKERGSEDATEREKATSDSGGDGLEAALKSEEPSDLPCPVEETKNHMKENNSLLLLSKDAQQESTDPKIKSMDKGEKKPDGNEKGERKKEKKEKTEKKIDHSKRNEDTQKVKDERQAKDKEVESTKLPSEKSNSRARAAEGTKEDCSLLDSDVDGLTDITVSSVHTSDLSSFEEDTEEEVVVSESMEEGEITSE
IRESfinder result
IRESfinder score
0.477244386
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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