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mmu_circRif1_511

Basic information of circular RNA
PanCircBase ID:

mmu_circRif1_511

mm39_Chr. Position ID:

chr2|51993444|51995649|+

Gene name:

Rif1

Transcript:

ENSMUST00000112693.10

CircRNA type:

Exonic circular (circ)RNA

Exon/Intron count:

3

Exon/intron indexes:

22,23,24

Exon/intron offsets:

0,1113,2002

Genomic length:

2205

Exon/intron sizes in nt:

2,65,43,203

Flanking exon/introns:

chr2:51988964-51993444|chr2:51995649-51996912

Splice length:

511

Other database IDs:

CIRCpedia: HSA_CIRCpedia_38111

Human Ortholog IDs:
Mature spliced Sequence:

CACCGCAGAGATCTTCAGATTGGTCCAGAAAGAAGAAGGAGCCTCTAGGGAAATTGGCTTCTTTATTTAAGCTAATTGTGAAAGTCATCGATACTTTCCACACTCTAAGCCTCAAGGAAACATTCTCTGATACACTGCTTGCTATTGGTAACTCTATCATTAGCATGCTTTCCAATGTATTTGGACATATTTCCTTGCCCTCTATGATCCGAGAAATATTTGCAACTTTTACAAGACCTCTGGCTTTACTGTATGAAAACTCAAAGCTGGATGAGGCTCCTAAAGTGTATACTAGTCTGAACAACAAGTTAGAAAAGCTATTGGGAGAAATTGTTGCATGCCTACAGTTCAGCTATCTTGGAGCCTATGACAGTGAACTTCTTGAACATCTTTCTCCACTCCTGTGCGTAATATTTCTTCACAAGAATAAACAGATTCGGAAACAGAGTGCTCTGTTGTGGAATGCCACATTTGCTAAAGCGACAGCTCTGGTTTATCCTGAGGAATTAAA

Divergent primers for circular RNA PCR

Primer Set-1

Forward primer
Tm
Reverse primer
Tm
Product size

ACAGATTCGGAAACAGAGTGCT

59.96

AGCCAATTTCCCTAGAGGCT

58.4

140

Primer Set-2

Forward primer
Tm
Reverse primer
Tm
Product size

ACAGATTCGGAAACAGAGTGC

58.58

AGCCAATTTCCCTAGAGGCT

58.4

140

PCR template sequence:

TATTTCTTCACAAGAATAAACAGATTCGGAAACAGAGTGCTCTGTTGTGGAATGCCACATTTGCTAAAGCGACAGCTCTGGTTTATCCTGAGGAATTAAACACCGCAGAGATCTTCAGATTGGTCCAGAAAGAAGAAGGAGCCTCTAGGGAAATTGGCTTCTTTATTTAAGCTAATTGTGAAAGTCATCGATACTTTCCA

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

1

Interacting miRNAs (#binding sites)

mmu-miR-3470b(1)

siRNAs for circular RNA silencing
Junction sequence

CTGAGGAATTAAACACCGCAGAGATC

siRNA sets

NA

Protein-coding potential of circular RNAs

CPAT analysis

CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length

CIRCRIF1_511_ORF_1

0.8406

0.020215023

0.35161807

417

ORF sequence:

ATGCTTTCCAATGTATTTGGACATATTTCCTTGCCCTCTATGATCCGAGAAATATTTGCAACTTTTACAAGACCTCTGGCTTTACTGTATGAAAACTCAAAGCTGGATGAGGCTCCTAAAGTGTATACTAGTCTGAACAACAAGTTAGAAAAGCTATTGGGAGAAATTGTTGCATGCCTACAGTTCAGCTATCTTGGAGCCTATGACAGTGAACTTCTTGAACATCTTTCTCCACTCCTGTGCGTAATATTTCTTCACAAGAATAAACAGATTCGGAAACAGAGTGCTCTGTTGTGGAATGCCACATTTGCTAAAGCGACAGCTCTGGTTTATCCTGAGGAATTAAACACCGCAGAGATCTTCAGATTGGTCCAGAAAGAAGAAGGAGCCTCTAGGGAAATTGGCTTCTTTATTTAA

Peptide sequence:

MLSNVFGHISLPSMIREIFATFTRPLALLYENSKLDEAPKVYTSLNNKLEKLLGEIVACLQFSYLGAYDSELLEHLSPLLCVIFLHKNKQIRKQSALLWNATFAKATALVYPEELNTAEIFRLVQKEEGASREIGFFI

IRESfinder result

IRESfinder score

0.778458188

IRES/non IRES

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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