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mmu_ciFus_1449
Basic information of circular RNA
PanCircBase ID:
mmu_ciFus_1449
mm39_Chr. Position ID:
chr7|127573606|127575055|+
Gene name:
Fus
Transcript:
ENSMUST00000106251.10
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
7
Exon/intron offsets:
0
Genomic length:
1449
Exon/intron sizes in nt:
1449
Flanking exon/introns:
chr7:127573606-127575059
Splice length:
1449
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGTGAACAGAGTTTCCAAAATTCCCAACTCCCAGCAATGCTTTGTCTGATTGTTCATTTGCAGATGTCTTAGCGTGTTAAGTGTCAAAGGTTTCTAAAGTGTCTGTAGCCACCTCCAGAAGGGGTGGGGTAGAATGCCTCCTGCTGCCAGATGTGTGCTAACTGGAGGCCAGCAGGGATAAGCTCTTGGCAGTCTGCTATGTTACTAAATTGGTTTTACACAAGTTAATAGTATTATTTAGTAGGCCTCTTGGTGGGTGTTGCCACATCTAGCACTTAGTGACCACACCATCCTGGGCAACTGGGGGATGTTCTGGAACATGTGGTGCCAACTTGGCTTTAGGATCCTTTTGATCAGTGTGTCCAAGGTGTGTGTGTGTGTGTGCGTGTGTGTATGTATACACAATCTCCCAAATGTTTTAATTTAGGGAGAGGGACATGAAATAGTGCCCTGCCCTGAAGATGGTAAAGTTGGTGTATATATATTTATATTAAATAGTGATGTCAATGCAATTCTACATATGTACTCAGACAAATATATAGGAACTAGATCTGGGAAGGAAGGTGTGGACTACAAGAAAGATCTTGAGTGTATTGCTCATGGGAAATAACCAGGTTTTACACAGCACAAACTTGAATTCATGGAAAAAAATGGCAAATTTGAGAAGTCTCCTAGTAAGCTGGAACTTTTCTGGTTTGTTTAACAAAATGGTTTCTTGATTTGTCTAAAAACACTTAAAGCCAAAGGCTTGGGTTCATGACTTAGGTGTCATTGTGTACAGGTACAATATTTTTATATGGTGAATTTAGATAAACATTGGTTAAAGATGGTGTCTGGAAAAAAATAGGCTGTATTATGAAAACACTTCTGGTCTGTTCCCTGGGACATGCTTTTAAAATACAATAGTAGCTACTATGTATGTTATTTTCATGTTGCTTTGGGGAAACAACATGGTTAAGAATGGTTTTCAAGATGAAATTAAAAATTGTTCTACAAGGGTTGTCTTTGGTGTAAAAGTTTGGAGAAACTGGATGGATGCACTTTACATTGCTGGTGTTGAGCTTACTATGCTTCTCTTGTGAGAGAACAGGGCCAAGTTATGTATGAGTTGGTTGGTTAATTTAAAAGAATTACTAATTCCCCTACCCCCATCTGTGCTGAGGACATTTCCCAGCCCTAGCTGGGGGAAAACAGCATTTTCTTGAAGTGTGTGGCATTATCAATGGGGATTCAAAGTAGCAGATCTTAAGAAAGAGGCCCTTGTCTCCGTCTAGAATTTTCTCCATTGGGAAGGCCTCAGGATAGGGTTTGGAGAGAGGCTGGAAGCAATTACCTAATACATTCCAAGAATTTGCATTTGATGTTAATTTGTTGCCTTATCTGTCCTTTCCTGTTAGCTAATGGTTCCTTTTCCTTGTTTTTGTTTTCTTTTTTTTTTCATGTAAC
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGCCTTATCTGTCCTTTCCTGT
59.09
ACACGCTAAGACATCTGCAA
57.54
154
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGCCTTATCTGTCCTTTCCTGT
59.09
AACACGCTAAGACATCTGCA
57.54
155
PCR template sequence:
AGAATTTGCATTTGATGTTAATTTGTTGCCTTATCTGTCCTTTCCTGTTAGCTAATGGTTCCTTTTCCTTGTTTTTGTTTTCTTTTTTTTTTCATGTAACGTAAGTGAACAGAGTTTCCAAAATTCCCAACTCCCAGCAATGCTTTGTCTGATTGTTCATTTGCAGATGTCTTAGCGTGTTAAGTGTCAAAGGTTTCTAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
16
Interacting miRNAs (#binding sites)
mmu-miR-466d-3p(2), mmu-miR-466b-3p(2), mmu-miR-106a-5p(1), mmu-miR-93-5p(1), mmu-miR-20a-5p(1), mmu-miR-17-5p(1), mmu-miR-206-3p(1), mmu-miR-33-5p(1), mmu-miR-18a-5p(1), mmu-miR-495-3p(1), mmu-miR-96-5p(1), mmu-miR-467b-5p(1), mmu-miR-335-3p(1), mmu-miR-669d-5p(1), mmu-miR-3065-5p(1), mmu-miR-490-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TTTTTCATGTAACGTAAGTGAACAGA
siRNA sets
GTTCACTTACGTTACATGA, TTCACTTACGTTACATGAA, TCTGTTCACTTACGTTACA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.807626324
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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