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mmu_circBecn1_297
Basic information of circular RNA
PanCircBase ID:
mmu_circBecn1_297
mm39_Chr. Position ID:
chr11|101182208|101184973|-
Gene name:
Becn1
Transcript:
ENSMUST00000130916.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
9,8
Exon/intron offsets:
0,2618
Genomic length:
2765
Exon/intron sizes in nt:
1,50,147
Flanking exon/introns:
chr11:101181325-101182208|chr11:101184973-101185795
Splice length:
297
Other database IDs:
CIRCpedia: MMU_CIRCpedia_38388, circAtlas: mmu-Becn1_0002
Human Ortholog IDs:
Mature spliced Sequence:
GTACCAGCGGGAGTATAGTGAGTTTAAAAGGCAGCAGCTGGAGTTGGATGACGAACTCAAGAGTGTGGAGAACCAGGTGCGCTACGCCCAGATCCAGCTGGACAAGCTCAAGAAAACCAATGTCTTCAATGCCACCTTCCACATCTGGCACAGCGGACAGTTTGGCACAATCAATAATTTCAGACTGGGTCGCTTGCCCAGTGTTCCTGTGGAGTGGAATGAAATCAATGCTGCCTGGGGCCAGACAGTGCTGCTGCTCCATGCTTTGGCCAATAAGATGGGTCTGAAGTTTCAGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCAGTGTTCCTGTGGAGTGG
60.25
GTCATCCAACTCCAGCTGCT
60.04
152
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCAGTGTTCCTGTGGAGTGG
60.25
TCATCCAACTCCAGCTGCTG
60.04
151
PCR template sequence:
CCAGTGTTCCTGTGGAGTGGAATGAAATCAATGCTGCCTGGGGCCAGACAGTGCTGCTGCTCCATGCTTTGGCCAATAAGATGGGTCTGAAGTTTCAGAGGTACCAGCGGGAGTATAGTGAGTTTAAAAGGCAGCAGCTGGAGTTGGATGACGAACTCAAGAGTGTGGAGAACCAGGTGCGCTACGCCCAGATCCAGCTG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
9
Interacting miRNAs (#binding sites)
mmu-miR-15a-5p(1), mmu-miR-200a-3p(1), mmu-miR-7b-5p(1), mmu-miR-103-3p(1), mmu-miR-322-5p(1), mmu-miR-15b-5p(1), mmu-miR-107-3p(1), mmu-miR-705(1), mmu-miR-3087-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TGAAGTTTCAGAGGTACCAGCGGGAG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCBECN1_297_ORF_1
1.2817
0.458882777
0.781738388
315
ORF sequence:
ATGGGTCTGAAGTTTCAGAGGTACCAGCGGGAGTATAGTGAGTTTAAAAGGCAGCAGCTGGAGTTGGATGACGAACTCAAGAGTGTGGAGAACCAGGTGCGCTACGCCCAGATCCAGCTGGACAAGCTCAAGAAAACCAATGTCTTCAATGCCACCTTCCACATCTGGCACAGCGGACAGTTTGGCACAATCAATAATTTCAGACTGGGTCGCTTGCCCAGTGTTCCTGTGGAGTGGAATGAAATCAATGCTGCCTGGGGCCAGACAGTGCTGCTGCTCCATGCTTTGGCCAATAAGATGGGTCTGAAGTTTCAG
Peptide sequence:
MGLKFQRYQREYSEFKRQQLELDDELKSVENQVRYAQIQLDKLKKTNVFNATFHIWHSGQFGTINNFRLGRLPSVPVEWNEINAAWGQTVLLLHALANKMGLKFQ
IRESfinder result
IRESfinder score
0.42590457
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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