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mmu_circRanbp2_889
Basic information of circular RNA
PanCircBase ID:
mmu_circRanbp2_889
mm39_Chr. Position ID:
chr10|58290394|58291776|+
Gene name:
Ranbp2
Transcript:
ENSMUST00000219332.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
4,5
Exon/intron offsets:
0,646
Genomic length:
1382
Exon/intron sizes in nt:
153,736
Flanking exon/introns:
chr10:58289245-58290394|chr10:58291776-58293413
Splice length:
889
Other database IDs:
CIRCpedia: MMU_CIRCpedia_24159, circAtlas: mmu-Ranbp2_0015
Human Ortholog IDs:
Mature spliced Sequence:
CGTTCAGTGGAATTAAACCCAACGCAAAAAGATCTTGTGTTGAAGATTGCAGAATTGCTTTGTAAAAATGATGTGACTGATGGAAGAGCAAAATACTGGGTTGAAAGAGCAGCCAAACTTTTCCCAGGAAGTCCTGCCATTTATAAGTTAAAGGAACAACTTTTAGATTGTAAAGGTGAAGATGGATGGAATAAACTTTTTGACTTGATTCAGTCAGAACTTTATGCAAGACCTGATGATATTCATGTAAATATCCGACTAGTAGAGCTTTACCGTTCAAATAAAAGATTGAAGGATGCTGTGGCCCACTGCCATGAGGCAGACAGGAACACAGCTTTACGTTCAAGTTTAGAATGGAATTTATGTGTTGTACAGACTCTTAAGGTAGGTGAAACTTATTTCTCTACAGTGTTCTAACACTTCAATTTCTTTCATTGATATAGCACAACTGTAAAATGACATTTTTGCCAAGCTCAATTTAAGTCAATAAATTGGGAAAATAAATTCGGTGTGGATCTTTCTGTGTATTTGGTATTTTTATTTATAAGGCTAATGTAATTTCATACACCTATAATTTGCTCTGTGTGTGTGTGTTTGATATTTTATTTAAAAGGCTAGCATAAAAACACTCAGTTTTGCACAGTTTTAATAAGAATGGGCCAAGTAGTTTGTAGGGATACAGTGGTCAATTTTTCAAAGTCTATTGAAGTTTTGTAACTCACTGTGTTTTTCTTAAAAATTAGGAATATCTGGAGTCTCTGCAGTGTTTGGATTCTGATAAAAGTACTTGGAGAGCAACCAATAAAGACTTACTTCTAGCCTATGCTAACCTTATGCTACTTACACTTTCCACCAGAGATGTGCAGGAAGGTAGAGAACTATTGGAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCACCAGAGATGTGCAGGAA
59.67
CCCAGTATTTTGCTCTTCCATCA
58.73
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TTCCACCAGAGATGTGCAGG
59.67
CCCAGTATTTTGCTCTTCCATCA
58.73
142
PCR template sequence:
GGAGAGCAACCAATAAAGACTTACTTCTAGCCTATGCTAACCTTATGCTACTTACACTTTCCACCAGAGATGTGCAGGAAGGTAGAGAACTATTGGAAAGCGTTCAGTGGAATTAAACCCAACGCAAAAAGATCTTGTGTTGAAGATTGCAGAATTGCTTTGTAAAAATGATGTGACTGATGGAAGAGCAAAATACTGGG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
7
Interacting miRNAs (#binding sites)
mmu-miR-200a-3p(1), mmu-miR-141-3p(1), mmu-miR-320-3p(1), mmu-miR-431-5p(1), mmu-miR-382-5p(1), mmu-miR-1198-5p(1), mmu-miR-129-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AACTATTGGAAAGCGTTCAGTGGAAT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCRANBP2_889_ORF_1
0.4949
-0.16856527
0.016286595
132
ORF sequence:
ATGCTAACCTTATGCTACTTACACTTTCCACCAGAGATGTGCAGGAAGGTAGAGAACTATTGGAAAGCGTTCAGTGGAATTAAACCCAACGCAAAAAGATCTTGTGTTGAAGATTGCAGAATTGCTTTGTAA
Peptide sequence:
MLTLCYLHFPPEMCRKVENYWKAFSGIKPNAKRSCVEDCRIAL
IRESfinder result
IRESfinder score
0.841767626
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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