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mmu_circ1600020E01Rik_503
Basic information of circular RNA
PanCircBase ID:
mmu_circ1600020E01Rik_503
mm39_Chr. Position ID:
chr6|86504872|86540519|+
Gene name:
1600020E01Rik
Transcript:
ENSMUST00000204008.3
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
2,3,4,5
Exon/intron offsets:
0,4302,23026,35541
Genomic length:
35647
Exon/intron sizes in nt:
84,11,51,98,106
Flanking exon/introns:
chr6:86503264-86504872|chr6:86540519-86541257
Splice length:
503
Other database IDs:
circAtlas: mmu-1600020E01Rik_0003
Human Ortholog IDs:
Mature spliced Sequence:
AGCAAGACAATCCCAGAGAGATGAATGAAGTGAATGACCCAAGGTTACACAGGATGGAACCTATATCTTCTGATTTCTCTACTGGCCTGCACTCCACGTTCTGAGGAGGAGTCCTTGAAGCTACTGAGATAATGGAACAATGGAGTAGATAGTCCATTATAACTCATCTGGGATTCTTCTCAACTTCAAGTGACCACAGAAAAAAGGTTGTCCTGTCCATTCTGTCCCTTTTGCTGTACCCATGGTGACTGCATCAGCCTGAGAAGACTGTGATGTTACGTCTCTGCTTGAGATGTTAGGGGACTGGAGATGGCTCAGCAGTTAAGAGCTTTGGCTGTGGCTTGGGAGAAAACAAGGCTTGAAGAGGAGCAGGCGAGGCTGAGTCAGTGACTCCAGAGTGGAAACATGGTCTGGTAACACCACGCTTCCGGATGTGATTGTGGAGCTGGATTGCTTAACCTGGGCTAAGTCATTTATCTTCCTGTGTCCCTCAGTTCTTCATG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACGCTTCCGGATGTGATTGT
60.04
GAGTGCAGGCCAGTAGAGAA
59.1
176
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCGGATGTGATTGTGGAGCT
60.11
GAGTGCAGGCCAGTAGAGAA
59.1
170
PCR template sequence:
ACATGGTCTGGTAACACCACGCTTCCGGATGTGATTGTGGAGCTGGATTGCTTAACCTGGGCTAAGTCATTTATCTTCCTGTGTCCCTCAGTTCTTCATGAGCAAGACAATCCCAGAGAGATGAATGAAGTGAATGACCCAAGGTTACACAGGATGGAACCTATATCTTCTGATTTCTCTACTGGCCTGCACTCCACGTT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-150-5p(1), mmu-miR-136-5p(1), mmu-miR-3470b(1)
siRNAs for circular RNA silencing
Junction sequence
TCAGTTCTTCATGAGCAAGACAATCC
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
0.64093186
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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