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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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Institute of Life sciences, Bhubaneswar, India

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