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mmu_circBecn1_550_1
Basic information of circular RNA
PanCircBase ID:
mmu_circBecn1_550_1
mm39_Chr. Position ID:
chr11|101185791|101187142|-
Gene name:
Becn1
Transcript:
ENSMUST00000041403.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
7,6,5,4
Exon/intron offsets:
0,329,568,1228
Genomic length:
1351
Exon/intron sizes in nt:
19,91,37,91,123
Flanking exon/introns:
chr11:101184973-101185791|chr11:101187142-101189834
Splice length:
550
Other database IDs:
CIRCpedia: MMU_CIRCpedia_218696
Human Ortholog IDs:
Mature spliced Sequence:
GAGCCATTTATTGAAACTCGCCAGGATGGTGTCTCTCGAAGATTCATCCCCCCAGCCAGGTGCTTACTATTCCTCAGTCCCCTGTTTCTCACCAAAGGAATTTTAATTAGGACATGGGACTAGGATGATGTCTACAGAAAGTGCTAATAGCTTCACTCTGATCGGGGAGGCATCTGATGGTGGCACCATGGAGAACCTCAGCCGGAGACTCAAGGTCACTGGAGACCTGTTTGACATCATGTCGGGCCAGACCGATGTGGATCACCCGCTGTGTGAGGAATGCACAGACACTCTTTTAGACCAGCTGGACACTCAGCTCAATGTCACTGAGAATGAATGTCAGAACTACAAACGCTGTTTGGAGATCCTAGAGCAGATGAATGAGGATGACAGTGAGCAGCTGCAGAGGGAGCTGAAGGAGCTGGCCTTGGAGGAGGAGAGGCTGATCCAGGAGCTGGAAGATGTGGAAAAGAACCGCAAGGTGGTGGCAGAGAACCTGGAGAAGGTCCAGGCTGAGGCGGAGAGATTGGACCAGGAGGAAGCTCAGTGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GTGGCAGAGAACCTGGAGAA
59.31
CCTTTGGTGAGAAACAGGGGA
59.86
164
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GTGGCAGAGAACCTGGAGAA
59.31
TCCTTTGGTGAGAAACAGGGG
59.86
165
PCR template sequence:
GGAGCTGGAAGATGTGGAAAAGAACCGCAAGGTGGTGGCAGAGAACCTGGAGAAGGTCCAGGCTGAGGCGGAGAGATTGGACCAGGAGGAAGCTCAGTGGGAGCCATTTATTGAAACTCGCCAGGATGGTGTCTCTCGAAGATTCATCCCCCCAGCCAGGTGCTTACTATTCCTCAGTCCCCTGTTTCTCACCAAAGGAA
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-181a-5p(1), mmu-miR-181b-5p(1), mmu-miR-127-5p(1), mmu-miR-383-5p(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
GGAAGCTCAGTGGGAGCCATTTATTG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCBECN1_550_1_ORF_1
1.2415
0.436615442
0.941959602
549
ORF sequence:
ATGATGTCTACAGAAAGTGCTAATAGCTTCACTCTGATCGGGGAGGCATCTGATGGTGGCACCATGGAGAACCTCAGCCGGAGACTCAAGGTCACTGGAGACCTGTTTGACATCATGTCGGGCCAGACCGATGTGGATCACCCGCTGTGTGAGGAATGCACAGACACTCTTTTAGACCAGCTGGACACTCAGCTCAATGTCACTGAGAATGAATGTCAGAACTACAAACGCTGTTTGGAGATCCTAGAGCAGATGAATGAGGATGACAGTGAGCAGCTGCAGAGGGAGCTGAAGGAGCTGGCCTTGGAGGAGGAGAGGCTGATCCAGGAGCTGGAAGATGTGGAAAAGAACCGCAAGGTGGTGGCAGAGAACCTGGAGAAGGTCCAGGCTGAGGCGGAGAGATTGGACCAGGAGGAAGCTCAGTGGGAGCCATTTATTGAAACTCGCCAGGATGGTGTCTCTCGAAGATTCATCCCCCCAGCCAGGTGCTTACTATTCCTCAGTCCCCTGTTTCTCACCAAAGGAATTTTAATTAGGACATGGGACTAG
Peptide sequence:
MMSTESANSFTLIGEASDGGTMENLSRRLKVTGDLFDIMSGQTDVDHPLCEECTDTLLDQLDTQLNVTENECQNYKRCLEILEQMNEDDSEQLQRELKELALEEERLIQELEDVEKNRKVVAENLEKVQAEAERLDQEEAQWEPFIETRQDGVSRRFIPPARCLLFLSPLFLTKGILIRTWD
IRESfinder result
IRESfinder score
0.308765131
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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