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mmu_circDcaf8_604
Basic information of circular RNA
PanCircBase ID:
mmu_circDcaf8_604
mm39_Chr. Position ID:
chr1|172016505|172021468|+
Gene name:
Dcaf8
Transcript:
ENSMUST00000193638.6
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
10,11,12,13
Exon/intron offsets:
0,1905,3579,4846
Genomic length:
4963
Exon/intron sizes in nt:
1,31,23,61,20,117
Flanking exon/introns:
chr1:172015027-172016505|chr1:172021468-172022122
Splice length:
604
Other database IDs:
CIRCpedia: MMU_CIRCpedia_11855, circAtlas: mmu-Dcaf8_0014
circAtlas: hsa-DCAF8_0013
Human Ortholog IDs:
Mature spliced Sequence:
TAAAAGGCGTCAATTTCTATGGCCCCAAGAGTGAGTTTGTGGTGAGCGGTAGTGACTGCGGGCACATCTTCCTCTGGGAGAAGTCATCTTGCCAGATTATTCAGTTCATGGAAGGGGACAAGGGAGGTGTGGAACGAGAGTGGGAGATGATGCCAAAGAACAACTCCTCACTCTCCCAAGAGCACTTGGATGCTCTATCCCACCCCCTACACCCCTCGCCCAGTCTTCTAAGGCCAGAGTTCTTTTCTCTGTGCAAGCATTATTGACAGAATAAGTGCTGGCGTTGAGACAGGTCTGGTGAAGTGACCAGGCCCCTTGGTCCCCTGGCCCAGAGGTTCTGTGTCTGCTCCTGCAGGCTCCAGTTCAGGTAAACTGTCTTGAGCCCCATCCTCATCTGCCTGTTTTGGCAACCAGTGGCCTAGACCATGATGTGAAGATCTGGGCGCCGACAGCTGAAGCTTCCACTGAGCTGACAGGGTTAAAGGAAGTGATCAAGAAGAACAAGCGAGAGCGGGATGAAGACAGCTTGCACCACACTGATCTGTTTGATAGTCACATGCTGTGGTTCCTTATGCATCACCTGAGACAGAGACGCCATCATCGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AAGACAGCTTGCACCACACT
60.11
GTCACTACCGCTCACCACAA
59.97
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGAAGACAGCTTGCACCACA
60.11
GTCACTACCGCTCACCACAA
59.97
144
PCR template sequence:
GCGAGAGCGGGATGAAGACAGCTTGCACCACACTGATCTGTTTGATAGTCACATGCTGTGGTTCCTTATGCATCACCTGAGACAGAGACGCCATCATCGGTAAAAGGCGTCAATTTCTATGGCCCCAAGAGTGAGTTTGTGGTGAGCGGTAGTGACTGCGGGCACATCTTCCTCTGGGAGAAGTCATCTTGCCAGATTAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-31-5p(1), mmu-miR-326-3p(1), mmu-miR-339-5p(1), mmu-miR-10a-5p(1), mmu-miR-3087-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ACGCCATCATCGGTAAAAGGCGTCAA
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
0.59183578
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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