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mmu_circVps33b_300
Basic information of circular RNA
PanCircBase ID:
mmu_circVps33b_300
mm39_Chr. Position ID:
chr7|79935581|79937658|+
Gene name:
Vps33b
Transcript:
ENSMUST00000032749.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
15,16,17,18
Exon/intron offsets:
0,177,1274,1944
Genomic length:
2077
Exon/intron sizes in nt:
65,55,47,133
Flanking exon/introns:
chr7:79935378-79935581|chr7:79937658-79938147
Splice length:
300
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
CGCTGCTGGAGGGCTTCAACATCCGAGAGAGCACTAGCTACATTGAAGAGCACATAGACCGGCAGGTGTCGCCCATAGAGAGCCTACGCCTCATGTGCCTTTTGTCCATCACTGAGAATGGTTTGATACCCAAGGATTATCGGTCCCTGAAAACACAGTATCTGCAGAGCTATGGCCCCGAGCACCTGCTAACCTTCTCCAACCTGCGGAGAGCCGGGCTTCTAACAGAGCAGGCTCCTGGGGACACCCTCACAGCAGTAGAGAGTAAAGTGAGCAAGCTGGTGACGGACAAGGCTGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTAACAGAGCAGGCTCCTGG
59.82
GCCGGTCTATGTGCTCTTCA
59.82
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTAACAGAGCAGGCTCCTGG
59.82
TGCCGGTCTATGTGCTCTTC
59.82
143
PCR template sequence:
AACCTGCGGAGAGCCGGGCTTCTAACAGAGCAGGCTCCTGGGGACACCCTCACAGCAGTAGAGAGTAAAGTGAGCAAGCTGGTGACGGACAAGGCTGCAGCGCTGCTGGAGGGCTTCAACATCCGAGAGAGCACTAGCTACATTGAAGAGCACATAGACCGGCAGGTGTCGCCCATAGAGAGCCTACGCCTCATGTGCCT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
NA
Interacting miRNAs (#binding sites)
NA
siRNAs for circular RNA silencing
Junction sequence
GACAAGGCTGCAGCGCTGCTGGAGGG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCVPS33B_300_ORF_1
1.2145
0.390674673
0.905285004
507
ORF sequence:
ATGTGCCTTTTGTCCATCACTGAGAATGGTTTGATACCCAAGGATTATCGGTCCCTGAAAACACAGTATCTGCAGAGCTATGGCCCCGAGCACCTGCTAACCTTCTCCAACCTGCGGAGAGCCGGGCTTCTAACAGAGCAGGCTCCTGGGGACACCCTCACAGCAGTAGAGAGTAAAGTGAGCAAGCTGGTGACGGACAAGGCTGCAGCGCTGCTGGAGGGCTTCAACATCCGAGAGAGCACTAGCTACATTGAAGAGCACATAGACCGGCAGGTGTCGCCCATAGAGAGCCTACGCCTCATGTGCCTTTTGTCCATCACTGAGAATGGTTTGATACCCAAGGATTATCGGTCCCTGAAAACACAGTATCTGCAGAGCTATGGCCCCGAGCACCTGCTAACCTTCTCCAACCTGCGGAGAGCCGGGCTTCTAACAGAGCAGGCTCCTGGGGACACCCTCACAGCAGTAGAGAGTAAAGTGAGCAAGCTGGTGACGGACAAGGCTGCA
Peptide sequence:
MCLLSITENGLIPKDYRSLKTQYLQSYGPEHLLTFSNLRRAGLLTEQAPGDTLTAVESKVSKLVTDKAAALLEGFNIRESTSYIEEHIDRQVSPIESLRLMCLLSITENGLIPKDYRSLKTQYLQSYGPEHLLTFSNLRRAGLLTEQAPGDTLTAVESKVSKLVTDKAA
IRESfinder result
IRESfinder score
0.436917237
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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