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mmu_circAnapc5_544
Basic information of circular RNA
PanCircBase ID:
mmu_circAnapc5_544
mm39_Chr. Position ID:
chr5|122944307|122956067|-
Gene name:
Anapc5
Transcript:
ENSMUST00000086216.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
7,6,5,4
Exon/intron offsets:
0,1055,8304,11576
Genomic length:
11760
Exon/intron sizes in nt:
191,102,67,184
Flanking exon/introns:
chr5:122940967-122944307|chr5:122956067-122956916
Splice length:
544
Other database IDs:
circAtlas: mmu-Anapc5_0001
circBase: hsa_circ_0097553, circAtlas: hsa-APC5_0001, CIRCpedia: HSA_CIRCpedia_66707
Human Ortholog IDs:
Mature spliced Sequence:
GTCTGTTCCTGCGCCACATGATCTTGGCCTACAGTAAGCTTTCTTTCAGTCAAGTGTTTAAGCTGTACACTGCCCTCCAGCAGTACTTCCAGAACGGGGAGAAAAAGACGGTGGAAGATGCTGATATGGACCGAGAGGATGGAGAGAAACAGATGGAGAAGGAAGAGCTCGACGTGTCCGTGAGAGAAGAGGAAGTATCTTGCAGTGGTCCTCTGTCCCAAAAACAAGCGGAATTTTTTCTCTCTCAGCAGGCCGCTTTGTTGAAGAATGATGAGACTAAAGCCCTCACCCCAGCTTCCTTGCAGAAGGAATTGAACAACCTGTTGAAATTTAATCCTGATTTTGCTGAAGCTCATTACCTCAGCTACTTAAACAACCTCCGTGTTCAAGATGTTTTCAGCTCAACACACAGCCTCCTGCATTATTTTGACCGCCTGATTCTCACTGGAGCGGAGGGCAAAAGTAATGGGGAAGAGGGTTATGGCCGGAGCCTGAGATACGCTGCTCTCAACCTGGCTGCCCTGCACTGCCGCTTCGGTCACTA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GAAGAGGGTTATGGCCGGAG
59.89
CCCCGTTCTGGAAGTACTGC
60.39
173
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ATACGCTGCTCTCAACCTGG
59.82
CCCCGTTCTGGAAGTACTGC
60.39
147
PCR template sequence:
CTGGAGCGGAGGGCAAAAGTAATGGGGAAGAGGGTTATGGCCGGAGCCTGAGATACGCTGCTCTCAACCTGGCTGCCCTGCACTGCCGCTTCGGTCACTAGTCTGTTCCTGCGCCACATGATCTTGGCCTACAGTAAGCTTTCTTTCAGTCAAGTGTTTAAGCTGTACACTGCCCTCCAGCAGTACTTCCAGAACGGGGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
8
Interacting miRNAs (#binding sites)
mmu-miR-34c-5p(1), mmu-miR-30e-5p(1), mmu-miR-34a-5p(1), mmu-miR-152-3p(1), mmu-miR-136-5p(1), mmu-miR-370-3p(1), mmu-miR-34b-5p(1), mmu-miR-207(1)
siRNAs for circular RNA silencing
Junction sequence
GCTTCGGTCACTAGTCTGTTCCTGCG
siRNA sets
ACAGACTAGTGACCGAAGC, AACAGACTAGTGACCGAAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCANAPC5_544_ORF_1
1.1604
0.300598577
0.873097691
528
ORF sequence:
ATGATCTTGGCCTACAGTAAGCTTTCTTTCAGTCAAGTGTTTAAGCTGTACACTGCCCTCCAGCAGTACTTCCAGAACGGGGAGAAAAAGACGGTGGAAGATGCTGATATGGACCGAGAGGATGGAGAGAAACAGATGGAGAAGGAAGAGCTCGACGTGTCCGTGAGAGAAGAGGAAGTATCTTGCAGTGGTCCTCTGTCCCAAAAACAAGCGGAATTTTTTCTCTCTCAGCAGGCCGCTTTGTTGAAGAATGATGAGACTAAAGCCCTCACCCCAGCTTCCTTGCAGAAGGAATTGAACAACCTGTTGAAATTTAATCCTGATTTTGCTGAAGCTCATTACCTCAGCTACTTAAACAACCTCCGTGTTCAAGATGTTTTCAGCTCAACACACAGCCTCCTGCATTATTTTGACCGCCTGATTCTCACTGGAGCGGAGGGCAAAAGTAATGGGGAAGAGGGTTATGGCCGGAGCCTGAGATACGCTGCTCTCAACCTGGCTGCCCTGCACTGCCGCTTCGGTCACTAG
Peptide sequence:
MILAYSKLSFSQVFKLYTALQQYFQNGEKKTVEDADMDREDGEKQMEKEELDVSVREEEVSCSGPLSQKQAEFFLSQQAALLKNDETKALTPASLQKELNNLLKFNPDFAEAHYLSYLNNLRVQDVFSSTHSLLHYFDRLILTGAEGKSNGEEGYGRSLRYAALNLAALHCRFGH
IRESfinder result
IRESfinder score
0.665072714
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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