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mmu_circBecn1_618
Basic information of circular RNA
PanCircBase ID:
mmu_circBecn1_618
mm39_Chr. Position ID:
chr11|101185791|101189902|-
Gene name:
Becn1
Transcript:
ENSMUST00000041403.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
7,6,5,4,3
Exon/intron offsets:
0,329,568,1228,4043
Genomic length:
4111
Exon/intron sizes in nt:
199,137,91,123,68
Flanking exon/introns:
chr11:101184973-101185791|chr11:101189902-101192553
Splice length:
618
Other database IDs:
CIRCpedia: MMU_CIRCpedia_474, circAtlas: mmu-Becn1_0004
Human Ortholog IDs:
Mature spliced Sequence:
CTCCATTACTTACCACAGCCCAGGCGAAACCAGGAGAGACCCAGGAGGAAGAGGCTAACTCAGGAGAGGAGCCATTTATTGAAACTCGCCAGGATGGTGTCTCTCGAAGATTCATCCCCCCAGCCAGGTGCTTACTATTCCTCAGTCCCCTGTTTCTCACCAAAGGAATTTTAATTAGGACATGGGACTAGGATGATGTCTACAGAAAGTGCTAATAGCTTCACTCTGATCGGGGAGGCATCTGATGGTGGCACCATGGAGAACCTCAGCCGGAGACTCAAGGTCACTGGAGACCTGTTTGACATCATGTCGGGCCAGACCGATGTGGATCACCCGCTGTGTGAGGAATGCACAGACACTCTTTTAGACCAGCTGGACACTCAGCTCAATGTCACTGAGAATGAATGTCAGAACTACAAACGCTGTTTGGAGATCCTAGAGCAGATGAATGAGGATGACAGTGAGCAGCTGCAGAGGGAGCTGAAGGAGCTGGCCTTGGAGGAGGAGAGGCTGATCCAGGAGCTGGAAGATGTGGAAAAGAACCGCAAGGTGGTGGCAGAGAACCTGGAGAAGGTCCAGGCTGAGGCGGAGAGATTGGACCAGGAGGAAGCTCAGTGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GTGGCAGAGAACCTGGAGAA
59.31
CACCATCCTGGCGAGTTTCA
60.32
165
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GTGGCAGAGAACCTGGAGAA
59.31
ACACCATCCTGGCGAGTTTC
60.32
166
PCR template sequence:
GGAGCTGGAAGATGTGGAAAAGAACCGCAAGGTGGTGGCAGAGAACCTGGAGAAGGTCCAGGCTGAGGCGGAGAGATTGGACCAGGAGGAAGCTCAGTGGCTCCATTACTTACCACAGCCCAGGCGAAACCAGGAGAGACCCAGGAGGAAGAGGCTAACTCAGGAGAGGAGCCATTTATTGAAACTCGCCAGGATGGTGT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
10
Interacting miRNAs (#binding sites)
mmu-miR-181a-5p(1), mmu-miR-181b-5p(1), mmu-miR-29b-1-5p(1), mmu-miR-127-5p(1), mmu-miR-383-5p(1), mmu-miR-29b-2-5p(1), mmu-miR-342-3p(1), mmu-miR-207(1), mmu-miR-697(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GGAAGCTCAGTGGCTCCATTACTTAC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCBECN1_618_ORF_1
1.1221
0.390680295
0.939449703
600
ORF sequence:
ATGATGTCTACAGAAAGTGCTAATAGCTTCACTCTGATCGGGGAGGCATCTGATGGTGGCACCATGGAGAACCTCAGCCGGAGACTCAAGGTCACTGGAGACCTGTTTGACATCATGTCGGGCCAGACCGATGTGGATCACCCGCTGTGTGAGGAATGCACAGACACTCTTTTAGACCAGCTGGACACTCAGCTCAATGTCACTGAGAATGAATGTCAGAACTACAAACGCTGTTTGGAGATCCTAGAGCAGATGAATGAGGATGACAGTGAGCAGCTGCAGAGGGAGCTGAAGGAGCTGGCCTTGGAGGAGGAGAGGCTGATCCAGGAGCTGGAAGATGTGGAAAAGAACCGCAAGGTGGTGGCAGAGAACCTGGAGAAGGTCCAGGCTGAGGCGGAGAGATTGGACCAGGAGGAAGCTCAGTGGCTCCATTACTTACCACAGCCCAGGCGAAACCAGGAGAGACCCAGGAGGAAGAGGCTAACTCAGGAGAGGAGCCATTTATTGAAACTCGCCAGGATGGTGTCTCTCGAAGATTCATCCCCCCAGCCAGGTGCTTACTATTCCTCAGTCCCCTGTTTCTCACCAAAGGAATTTTAA
Peptide sequence:
MMSTESANSFTLIGEASDGGTMENLSRRLKVTGDLFDIMSGQTDVDHPLCEECTDTLLDQLDTQLNVTENECQNYKRCLEILEQMNEDDSEQLQRELKELALEEERLIQELEDVEKNRKVVAENLEKVQAEAERLDQEEAQWLHYLPQPRRNQERPRRKRLTQERSHLLKLARMVSLEDSSPQPGAYYSSVPCFSPKEF
IRESfinder result
IRESfinder score
0.320036316
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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