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mmu_ciRanbp2_1772

Basic information of circular RNA
PanCircBase ID:

mmu_ciRanbp2_1772

mm39_Chr. Position ID:

chr10|58297867|58299639|+

Gene name:

Ranbp2

Transcript:

ENSMUST00000003310.7

CircRNA type:

Circular intronic (ci)RNA

Exon/Intron count:

1

Exon/intron indexes:

9

Exon/intron offsets:

0

Genomic length:

1772

Exon/intron sizes in nt:

1772

Flanking exon/introns:

chr10:58297867-58299640

Splice length:

1772

Other database IDs:

Human Ortholog IDs:
Mature spliced Sequence:

GTAAGTTGCATCTTTCAAAGAAATATTCTTCATCATAATCTGTTTCTACCAGGAAGGCGCAACAGTCATAATATATTTTGGATTCTTTCTAGATTTAGTTTACATAAAATAGATGTACAGGTGTAAATGACACATTTTCTTTGAAATATTTGTTTGCTTCTATATTTTTCTGTCTCTCTCTGTCTCTCTCTCTCAAGACAGAATTTTTTTCTGTGTATCCCTGGCTCTCCTAGAATTTGCTCTGTAGACCAGGCTGTTCTTGAATTAATAGATCTGCCTGTTTTTTGCCTCCTGAGTGCTGTGATTAAAGGTGTGTGCCACCACTGCCTGGCAAAATAATTATTTATAAACATATATTTATATATGTTTTGCTTTTGTGAATTTTCTCTCCTATAGTGTGTATGTATATATCTGTATGTATATGTTGTTTGCTAGGTACTTTGTATTATTCAACATTTAATTTATTTACAGTTTTTTACTACTGTTAAAATAATACTACTTAGAACTTCAAACAGGATCTTTTTGCTTGTTTTGAAACAGGGTCTCACTATATATAGTCTTGCCTGGCCTGCAATTAGCTATGTAAGTGATGGCCTTGAACTCAGAGATCCGACTGCTCTGCCTCTGAAGTGCTGATATTAATGGTATACTCTACTACACCTGGCCTCATTTAACCAGGTTTTAATGAAAGTTGTATTTAAGATTTTTCTACCTTTGCATCTTCTCCATTGTTTTCTTCGTTGTATTTGCCCTTTTTTTCCTTGTTTATGTTCTAGGGTGTTTTTTGTTTTTGTTTTGTTTTATCTTTGTGACAGTCACCTTGTTGGGGTGAATACTTATTTGGACAGGAGTGCCATTAGCCTTTTCTTGCTATACCTAGTCAATGTACATGGCCTATTTCTTCCTATAAATCTGGACCACTTTGCTAGTCTGCTGACCTTTTTAGTGCCCTTGTACAAACTGAATAACTTTATTCTTTCAGATGGGCAGTGATGATCACAAAAGGGCAGTGTGTTAGAGAACTTCATTAATAGATAGTATGTGTTTCGAAATCAATTCCTTGGAGTTTCCTAAAAATGAAACTACTGAGACAGATTTTTTTTTCTTGCAAATTGCTAGAAGTGTTATCGTTTCTAGGAAAGTTGGACTTTTTTTTACTTCCAGAATTTCATAAGCTTTTTCAGTATTAGATTTCTTATAGAAGAAAACATCTTTTAATATGCTCATAAATTAAGTATTCCATTGTAATTTAATTACTCCTTATTGAAAGGAAAATCTTGAAACTTTAATAATAATAATAATATAAAGTGCACATTATTCTTGACAGTTTAGTTTTATTAATTTTTTAAGTTTTTTTAAGTTTAATTTTTAACTTTCTTGATGAGTCTTATTTTCTTAGATGGTATAGAAAACCTTTTTCATTTACACTGTTTCTTATTAAAATTTATAAAGTGTAGCTGGGCATGGTGGCATACTCCCTTAGTCTCAACATTCAGAAGGCAGAGGTAGGTAGATCTCTTGAGTTCAAGGCCATAGCATGTGAGTTTCGGGACAGACTGGCTGCATAGAGAAACCCTGTCTTGGAAAAACAAAGTTTTTAAAAGTATGAATACATTCAATAAAAATGTGAAATTTTTGCTATTCTGTTCTTCAGTTTTGAAACAGAAAAAAATGTTTGTAATTAAATTTTTTGCTAAATTAGTTGTTTATTTTTGTAATCTAAAGACCCAAAGAAAATGTATCATGCATGGCAGTTTTTCCCCTCTGTTCCA

Divergent primers for circular RNA PCR

Primer Set-1

Forward primer
Tm
Reverse primer
Tm
Product size

TGTTTATTTTTGTAATCTAAAGACCCA

56

TTATGACTGTTGCGCCTTCCT

60

140

Primer Set-2

Forward primer
Tm
Reverse primer
Tm
Product size

TTGTTTATTTTTGTAATCTAAAGACCC

55.18

TATGACTGTTGCGCCTTCCT

59.39

140

PCR template sequence:

TGTTTGTAATTAAATTTTTTGCTAAATTAGTTGTTTATTTTTGTAATCTAAAGACCCAAAGAAAATGTATCATGCATGGCAGTTTTTCCCCTCTGTTCCAGTAAGTTGCATCTTTCAAAGAAATATTCTTCATCATAATCTGTTTCTACCAGGAAGGCGCAACAGTCATAATATATTTTGGATTCTTTCTAGATTTAGTT

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-466d-3p(2), mmu-miR-466b-3p(2), mmu-miR-350-3p(2), mmu-miR-709(1), mmu-miR-185-5p(1), mmu-miR-499-5p(1), mmu-miR-384-3p(1), mmu-miR-369-3p(1), mmu-miR-3087-3p(1)

siRNAs for circular RNA silencing
Junction sequence

CCCCTCTGTTCCAGTAAGTTGCATCT

siRNA sets

ATGCAACTTACTGGAACAG, GATGCAACTTACTGGAACA

Protein-coding potential of circular RNAs

CPAT analysis

CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length

CIRANBP2_1772_ORF_3

0.4746

-0.479842755

0.005645523

171

ORF sequence:

ATGAATACATTCAATAAAAATGTGAAATTTTTGCTATTCTGTTCTTCAGTTTTGAAACAGAAAAAAATGTTTGTAATTAAATTTTTTGCTAAATTAGTTGTTTATTTTTGTAATCTAAAGACCCAAAGAAAATGTATCATGCATGGCAGTTTTTCCCCTCTGTTCCAGTAA

Peptide sequence:

MNTFNKNVKFLLFCSSVLKQKKMFVIKFFAKLVVYFCNLKTQRKCIMHGSFSPLFQ

IRESfinder result

IRESfinder score

0.957884873

IRES/non IRES

IRES

riboCIRC information

riboCIRC ID

NA

NA

Evidence
Peptide sequence:

NA

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