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mmu_circBod1l_1499
Basic information of circular RNA
PanCircBase ID:
mmu_circBod1l_1499
mm39_Chr. Position ID:
chr5|41983805|41995507|-
Gene name:
Bod1l
Transcript:
ENSMUST00000050556.11
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
8,7,6,5,4,3,2
Exon/intron offsets:
0,646,2290,4982,5748,7195,11577
Genomic length:
11702
Exon/intron sizes in nt:
13,91,12,16,71,50,61,50,00,000
Flanking exon/introns:
chr5:41981384-41983805|chr5:41995507-42001274
Splice length:
1499
Other database IDs:
CIRCpedia: MMU_CIRCpedia_229403, circAtlas: mmu-Bod1l_0025
Human Ortholog IDs:
Mature spliced Sequence:
CCTGCCTATCAGAATCTCAGGCAGAGAGTTGACAACTTCGTTGCAAACCACTTGGCAACTCATACATGGAGTCCCCACCTCAACAAGAACCAACTGAGAAACAATATCCGACAGCAAGTTCTGAAATCAGGAATGCTGGAGTCTGGTATTGACCGAATTATTTCTCAGGTTGTGGATCCAAAGATCAACCACACATTCAGGCCTCAGGTAGAAAAAGCTGTGCACGAGTTCCTGGCCACATTGAATCACAAAGAGGAAGCTGCTGGCAGCACAGCTCCTGATGATGAGAAGCCAGAATCTTCTGTCATTACCCAAGGTGCTCCTGCTCCTGGGCCCAGTGCTAATGTAGCCAGTGATGCCATGTCAATCTTGGAAACCATAACTTCTCTTAACCAAGAAGCTAACGCTGCCAGAGCTTCAACAGAAATGTCAAATGCCAAGGTCAGTGAGAGAACATCCAGAAAACTCTCATCTCAGCCAAGCACTGACGTTAGCACAGACAAGGAGAGAGGCTCAGAAGATGCGACTGAGAGAGAAAAGGCTACCTCTGATTCTGGAGGAGATGGGCTAGAAGCTGCTCTCAAGTCAGAAGAACCCAGTGATCTCCCTTGTCCAGTGGAAGAAACTAAAAATCATATGAAAGAGAATAATAGCTTACTGTTACTAAGTAAGGATGCTCAGCAGGAAAGCACTGACCCAAAAATTAAATCAATGGACAAAGGAGAAAAGAAACCCGATGGTAATGAGAAAGGAGAGAGAAAGAAAGAGAAGAAGGAAAAGACTGAAAAAAAAATTGATCACTCTAAAAGGAATGAAGATACACAGAAAGTGAAAGATGAGAGACAAGCAAAGGACAAAGAAGTGGAGAGCACAAAGCTTCCTTCTGAAAAGAGCAACAGCAGAGCCAGGGCTGCTGAGGGGACAAAAGAAGATTGTTCTTTGTTAGATTCTGATGTGGATGGTCTCACTGATATCACAGTCAGCTCTGTCCACACCAGTGACCTTTCGTCCTTTGAAGAAGACACAGAGGAGGAAGTTGTCGTGTCTGAGAGCATGGAAGAAGGAGAGATTACATCAGAGGATGAAGAGAAAAACAAGCAGAATAAAGCAAAAGTTCAACCTGGTGATTCTAGTGATGGAAAAGCCAGAGGCGTACGGCATGCTTATGTTCACAAACCGTATCTTTACTCAAAGTACTACAGTGATTCTGATGACGAACTCACAGTGGAGCAACGGCGGCAATCCATTGCTAAAGAAAAAGAAGAGAGACTTTTAAGAAGACGAATCAATAGAGAGAAACTTGAAGAAAAACGAAAGCAGAAAGCAGAAAAGACAAAATCTTCTAAAGTGAAGAGCCAAGGCAAAAGTACTGTGGACCTAGAAGACTCATCAGCCAAGACTTTGGAACCCAAAGCCCCAAGAATTAAAGAAGTCCTTAAAGAACGGAAAGTTCTAGAGAAGAAAGTAGCCTTAAGCAAAAGAAGAAGAAAAGATTCAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TTTGGAACCCAAAGCCCCAA
60.33
GCCAAGTGGTTTGCAACGAA
60.18
155
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGAACCCAAAGCCCCAAGAA
60.47
GCCAAGTGGTTTGCAACGAA
60.18
152
PCR template sequence:
CTTTGGAACCCAAAGCCCCAAGAATTAAAGAAGTCCTTAAAGAACGGAAAGTTCTAGAGAAGAAAGTAGCCTTAAGCAAAAGAAGAAGAAAAGATTCAAGCCTGCCTATCAGAATCTCAGGCAGAGAGTTGACAACTTCGTTGCAAACCACTTGGCAACTCATACATGGAGTCCCCACCTCAACAAGAACCAACTGAGAA
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
GAAAAGATTCAAGCCTGCCTATCAGA
siRNA sets
ATAGGCAGGCTTGAATCTT,GATAGGCAGGCTTGAATCT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCBOD1L_1499_ORF_1
1.123
0.196587531
0.99970952
1464
ORF sequence:
ATGCTGGAGTCTGGTATTGACCGAATTATTTCTCAGGTTGTGGATCCAAAGATCAACCACACATTCAGGCCTCAGGTAGAAAAAGCTGTGCACGAGTTCCTGGCCACATTGAATCACAAAGAGGAAGCTGCTGGCAGCACAGCTCCTGATGATGAGAAGCCAGAATCTTCTGTCATTACCCAAGGTGCTCCTGCTCCTGGGCCCAGTGCTAATGTAGCCAGTGATGCCATGTCAATCTTGGAAACCATAACTTCTCTTAACCAAGAAGCTAACGCTGCCAGAGCTTCAACAGAAATGTCAAATGCCAAGGTCAGTGAGAGAACATCCAGAAAACTCTCATCTCAGCCAAGCACTGACGTTAGCACAGACAAGGAGAGAGGCTCAGAAGATGCGACTGAGAGAGAAAAGGCTACCTCTGATTCTGGAGGAGATGGGCTAGAAGCTGCTCTCAAGTCAGAAGAACCCAGTGATCTCCCTTGTCCAGTGGAAGAAACTAAAAATCATATGAAAGAGAATAATAGCTTACTGTTACTAAGTAAGGATGCTCAGCAGGAAAGCACTGACCCAAAAATTAAATCAATGGACAAAGGAGAAAAGAAACCCGATGGTAATGAGAAAGGAGAGAGAAAGAAAGAGAAGAAGGAAAAGACTGAAAAAAAAATTGATCACTCTAAAAGGAATGAAGATACACAGAAAGTGAAAGATGAGAGACAAGCAAAGGACAAAGAAGTGGAGAGCACAAAGCTTCCTTCTGAAAAGAGCAACAGCAGAGCCAGGGCTGCTGAGGGGACAAAAGAAGATTGTTCTTTGTTAGATTCTGATGTGGATGGTCTCACTGATATCACAGTCAGCTCTGTCCACACCAGTGACCTTTCGTCCTTTGAAGAAGACACAGAGGAGGAAGTTGTCGTGTCTGAGAGCATGGAAGAAGGAGAGATTACATCAGAGGATGAAGAGAAAAACAAGCAGAATAAAGCAAAAGTTCAACCTGGTGATTCTAGTGATGGAAAAGCCAGAGGCGTACGGCATGCTTATGTTCACAAACCGTATCTTTACTCAAAGTACTACAGTGATTCTGATGACGAACTCACAGTGGAGCAACGGCGGCAATCCATTGCTAAAGAAAAAGAAGAGAGACTTTTAAGAAGACGAATCAATAGAGAGAAACTTGAAGAAAAACGAAAGCAGAAAGCAGAAAAGACAAAATCTTCTAAAGTGAAGAGCCAAGGCAAAAGTACTGTGGACCTAGAAGACTCATCAGCCAAGACTTTGGAACCCAAAGCCCCAAGAATTAAAGAAGTCCTTAAAGAACGGAAAGTTCTAGAGAAGAAAGTAGCCTTAAGCAAAAGAAGAAGAAAAGATTCAAGCCTGCCTATCAGAATCTCAGGCAGAGAGTTGACAACTTCGTTGCAAACCACTTGGCAACTCATACATGGAGTCCCCACCTCAACAAGAACCAACTGA
Peptide sequence:
MLESGIDRIISQVVDPKINHTFRPQVEKAVHEFLATLNHKEEAAGSTAPDDEKPESSVITQGAPAPGPSANVASDAMSILETITSLNQEANAARASTEMSNAKVSERTSRKLSSQPSTDVSTDKERGSEDATEREKATSDSGGDGLEAALKSEEPSDLPCPVEETKNHMKENNSLLLLSKDAQQESTDPKIKSMDKGEKKPDGNEKGERKKEKKEKTEKKIDHSKRNEDTQKVKDERQAKDKEVESTKLPSEKSNSRARAAEGTKEDCSLLDSDVDGLTDITVSSVHTSDLSSFEEDTEEEVVVSESMEEGEITSEDEEKNKQNKAKVQPGDSSDGKARGVRHAYVHKPYLYSKYYSDSDDELTVEQRRQSIAKEKEERLLRRRINREKLEEKRKQKAEKTKSSKVKSQGKSTVDLEDSSAKTLEPKAPRIKEVLKERKVLEKKVALSKRRRKDSSLPIRISGRELTTSLQTTWQLIHGVPTSTRTN
IRESfinder result
IRESfinder score
0.452447749
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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