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mmu_circBod1l_599
Basic information of circular RNA
PanCircBase ID:
mmu_circBod1l_599
mm39_Chr. Position ID:
chr5|41951569|41958583|-
Gene name:
Bod1l
Transcript:
ENSMUST00000050556.11
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
25,24,23,22,21,20,19,18
Exon/intron offsets:
0,655,843,3811,5545,5663,6533,6935
Genomic length:
7014
Exon/intron sizes in nt:
154,82,50,46,35,76,77,79
Flanking exon/introns:
chr5:41949280-41951569|chr5:41958583-41962494
Splice length:
599
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GAAGAGAACTCTGGAGATGTGGAGGAATTCTCCTCAGTTACTTCAAAGACAAACAGCAGCACTGGCCTGGAAGACAGAGATGAATTTAGCAGCAGTGAGGGTACAGGAGAAAAGACTGAGCCAAATGAAGATGATGGCAGCATCAAGTCACAGGAGGATGATCATCCAATAATTATTAAAAGGAGAAGAGGAAGACCCCGCAAATACCCTGCAGAAACAGCCTTTAAATCAAAAGAAGATTCCAAAACAGAGACTGACATTACCACAGTAGAACAATCTTCACCTAGTGGCAAACTAAAAGTCAGCCAAGCAGATGAGTCCAATAAAGAAATAGCCAACCTAGAAGAAAAAAGTACAAGCAATGACGATAGTGAAGAAAAAACAGCAAGTATGCGTCTGAGAGGAAGAAAGCCCAAACGCTCACTGACTTCATCAGATGATGCTGAATCCTCAGAGCCAGAAAGAAAGCGCCAGAAATCGGTGTCTGAAACATCAGAGGACAAAAAAGATGAGGAGTCTGATGAGGAAGAAGAGGAGGAAGAGGAGGAGGAGCCCTTGGGAGCCACCACAAGATCAGCCACCAGATCAGAGGCACAGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GAAGAGGAGGAGGAGCCCTT
60.33
CTCTGTCTTCCAGGCCAGTG
60.04
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GAAGAGGAGGAGGAGCCCTT
60.33
TCTCTGTCTTCCAGGCCAGT
60.18
142
PCR template sequence:
ACAAAAAAGATGAGGAGTCTGATGAGGAAGAAGAGGAGGAAGAGGAGGAGGAGCCCTTGGGAGCCACCACAAGATCAGCCACCAGATCAGAGGCACAGAGGAAGAGAACTCTGGAGATGTGGAGGAATTCTCCTCAGTTACTTCAAAGACAAACAGCAGCACTGGCCTGGAAGACAGAGATGAATTTAGCAGCAGTGAGG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-149-5p(1), mmu-miR-207(1)
siRNAs for circular RNA silencing
Junction sequence
CAGAGGCACAGAGGAAGAGAACTCTG
siRNA sets
TTCTCTTCCTCTGTGCCTC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCBOD1L_599_ORF_1
0.7717
0.20723993
0.440454688
381
ORF sequence:
ATGCGTCTGAGAGGAAGAAAGCCCAAACGCTCACTGACTTCATCAGATGATGCTGAATCCTCAGAGCCAGAAAGAAAGCGCCAGAAATCGGTGTCTGAAACATCAGAGGACAAAAAAGATGAGGAGTCTGATGAGGAAGAAGAGGAGGAAGAGGAGGAGGAGCCCTTGGGAGCCACCACAAGATCAGCCACCAGATCAGAGGCACAGAGGAAGAGAACTCTGGAGATGTGGAGGAATTCTCCTCAGTTACTTCAAAGACAAACAGCAGCACTGGCCTGGAAGACAGAGATGAATTTAGCAGCAGTGAGGGTACAGGAGAAAAGACTGAGCCAAATGAAGATGATGGCAGCATCAAGTCACAGGAGGATGATCATCCAATAA
Peptide sequence:
MRLRGRKPKRSLTSSDDAESSEPERKRQKSVSETSEDKKDEESDEEEEEEEEEEPLGATTRSATRSEAQRKRTLEMWRNSPQLLQRQTAALAWKTEMNLAAVRVQEKRLSQMKMMAASSHRRMIIQ
IRESfinder result
IRESfinder score
0.351268451
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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