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mmu_circBptf_226

Basic information of circular RNA
PanCircBase ID:

mmu_circBptf_226

mm39_Chr. Position ID:

chr11|106943614|106943840|-

Gene name:

Bptf

Transcript:

ENSMUST00000057892.15

CircRNA type:

Exonic circular (circ)RNA

Exon/Intron count:

1

Exon/intron indexes:

23

Exon/intron offsets:

0

Genomic length:

226

Exon/intron sizes in nt:

226

Flanking exon/introns:

chr11:106938169-106943614|chr11:106943840-106944048

Splice length:

226

Other database IDs:

circAtlas: hsa-BPTF_0160, CIRCpedia: HSA_CIRCpedia_79606

Human Ortholog IDs:
Mature spliced Sequence:

GATGATTGTCTGTAACCAGGTGATGAAGTATATTCTGGATAAGATAGATAAAGAAGAAAAACAGGCGGCCAAGAAACGCAAGCGGGAGGAGAGTGTGGAGCAGAAGCGGAGCAAACAGAATGCCAGCAAGCTCTCTGCTCTGCTGTTCAAACACAAGGAGCAGCTCAAAGCTGAGATCCTGAGAAAGAGAGCGCTCCTGGACAAAGAGTTGCAGATCCAAGTGCAG

Divergent primers for circular RNA PCR

Primer Set-1

Forward primer
Tm
Reverse primer
Tm
Product size

GCTCTCTGCTCTGCTGTTCA

60.04

GTTTCTTGGCCGCCTGTTTT

59.9

174

Primer Set-2

Forward primer
Tm
Reverse primer
Tm
Product size

CACAAGGAGCAGCTCAAAGC

59.76

GTTTCTTGGCCGCCTGTTTT

59.9

152

PCR template sequence:

CAAGCTCTCTGCTCTGCTGTTCAAACACAAGGAGCAGCTCAAAGCTGAGATCCTGAGAAAGAGAGCGCTCCTGGACAAAGAGTTGCAGATCCAAGTGCAGGATGATTGTCTGTAACCAGGTGATGAAGTATATTCTGGATAAGATAGATAAAGAAGAAAAACAGGCGGCCAAGAAACGCAAGCGGGAGGAGAGTGTGGAG

Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs

4

Interacting miRNAs (#binding sites)

mmu-miR-207(1), mmu-miR-5101(1), mmu-miR-669d-5p(1), mmu-miR-1904(1)

siRNAs for circular RNA silencing
Junction sequence

GATCCAAGTGCAGGATGATTGTCTGT

siRNA sets

ACAATCATCCTGCACTTGG, CAATCATCCTGCACTTGGA

Protein-coding potential of circular RNAs

CPAT analysis

CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length

CIRCBPTF_226_ORF_1

1.2382

0.464286242

0.663540574

240

ORF sequence:

ATGATTGTCTGTAACCAGGTGATGAAGTATATTCTGGATAAGATAGATAAAGAAGAAAAACAGGCGGCCAAGAAACGCAAGCGGGAGGAGAGTGTGGAGCAGAAGCGGAGCAAACAGAATGCCAGCAAGCTCTCTGCTCTGCTGTTCAAACACAAGGAGCAGCTCAAAGCTGAGATCCTGAGAAAGAGAGCGCTCCTGGACAAAGAGTTGCAGATCCAAGTGCAGGATGATTGTCTGTAA

Peptide sequence:

MIVCNQVMKYILDKIDKEEKQAAKKRKREESVEQKRSKQNASKLSALLFKHKEQLKAEILRKRALLDKELQIQVQDDCL

IRESfinder result

IRESfinder score

0.195678727

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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