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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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