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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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Institute of Life sciences, Bhubaneswar, India

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