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mmu_ciVps33a_1178
Basic information of circular RNA
PanCircBase ID:
mmu_ciVps33a_1178
mm39_Chr. Position ID:
chr5|123673417|123674595|-
Gene name:
Vps33a
Transcript:
ENSMUST00000031388.13
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
9
Exon/intron offsets:
0
Genomic length:
1178
Exon/intron sizes in nt:
1178
Flanking exon/introns:
chr5:123673414-123674595
Splice length:
1178
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTACGTGGGGCCATTCTACAGTAGAGCTGACGTTCATCGCCGTAAGATTGGAGCCAGGTAATTGGTCCATTGTGGTGTTGTCTGTGTTGTTGTTGAGACAGAAATTCACCATGGAGCCCTGGCTGGCCTAGAACTTGATACATAAATCAGTCTGGTCTTGAACTTAGAGATCCTCTTATCTCTGCCTTCTGAGTGCTCAGACTGTAGGGGGGACATCATCTCATCTGGACCTCAAGCCATTGTTTTGGTTTCCATGTATGCACTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTTTGTTTGGATTGGGAGTGTAGGTTATTGATAAGAGAGCACCTTTCTGACATACCAAGAAATCTTGGGTTCAGACCCAGTACTCCCTCCAAAATAAACAAAACAACAATAATAACAACAACAACACACACACATGCCAAGCAGCTGGGTGTTATATGTTTGCAATCCTAGCACTTGAGAGATGGAAGCATTTAAGGCTAGCTTTGGCTACATAGCAAGTTTGAGGCCAACCTGGGTTACAGGAGACCCTATCTCAAAACACAGGACCCCAGGTGACTTGCATCTTTGTTTGTTTAATCTGTTAGGTAATTTCTTCAAAAGTACATCACTATTAAAAATAGTTAATTGGGGCTGGAGAGATGGCTCAGTGGTTAAGAGTACTGACTTCTCTACCAGAGGTCCTGAGTTCAATTCCTAGAAACCACATAATGGCTTATGACCATCTGTAATGGGATCCAATGCCCTGGTGTGTCTGAAGACAGCTATAATGTACTCACATACATACAATACATCTTTTTTTTTTTTAAGTTAATTGTTCAGTTTGCAAAGGTTTCTATTTTTAAACAGCATTCCTGTCATTTTTTGCAAGGTAAATCAATGGTATGTTTTAGGTAGGCCAAGTCAAATAAAGCCCAGACACTTGGCAGCCACTGAGCTGGCTGTCTAAGAGGTAGATGAGTCTGAGCAGGCCATTTGGTTGCCCTCAGTGTCATTGCCACTTTATGATGGTGTGTGTCCGGTTGGGGGCATAGTGATGAGGGGGACAAAACTCAGCAGGTAGGAAATGAGAAAGTGAGCCATTCTCCCACATAGCCTTGGGGGAGATAGCAGAGACATCAAGTGGACTGGTTAGTCTGTTCATATTCCATTTC
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCCATTCTCCCACATAGCCT
59.52
GGACCAATTACCTGGCTCCA
59.38
144
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCCATTCTCCCACATAGCCT
59.52
TGGACCAATTACCTGGCTCC
59.38
145
PCR template sequence:
AGCAGGTAGGAAATGAGAAAGTGAGCCATTCTCCCACATAGCCTTGGGGGAGATAGCAGAGACATCAAGTGGACTGGTTAGTCTGTTCATATTCCATTTCGTACGTGGGGCCATTCTACAGTAGAGCTGACGTTCATCGCCGTAAGATTGGAGCCAGGTAATTGGTCCATTGTGGTGTTGTCTGTGTTGTTGTTGAGACA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
17
Interacting miRNAs (#binding sites)
mmu-miR-152-3p(1), mmu-miR-148b-3p(1), mmu-miR-148a-3p(1), mmu-miR-18a-5p(1), mmu-miR-709(1), mmu-miR-495-3p(1), mmu-miR-30b-5p(1), mmu-miR-149-5p(1), mmu-miR-340-5p(1), mmu-miR-297a-5p(1), mmu-miR-466d-3p(1), mmu-miR-224-5p(1), mmu-miR-466a-5p(1), mmu-miR-1187(1), mmu-miR-466p-5p(1), mmu-miR-410-3p(1), mmu-miR-466b-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CATATTCCATTTCGTACGTGGGGCCA
siRNA sets
NA
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
0.771821118
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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