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mmu_circIpo7_236
Basic information of circular RNA
PanCircBase ID:
mmu_circIpo7_236
mm39_Chr. Position ID:
chr7|109626277|109629051|+
Gene name:
Ipo7
Transcript:
ENSMUST00000084731.5
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
2,3
Exon/intron offsets:
0,2620
Genomic length:
2774
Exon/intron sizes in nt:
82,154
Flanking exon/introns:
chr7:109617715-109626277|chr7:109629051-109630814
Splice length:
236
Other database IDs:
CIRCpedia: MMU_CIRCpedia_2740, circAtlas: mmu-Ipo7_0003
circAtlas: hsa-IPO7_0010, CIRCpedia: HSA_CIRCpedia_6092
Human Ortholog IDs:
Mature spliced Sequence:
GCACACAAGTCTCTGAATTTCGTTTCAACACTGCTCCAGATTACTATGTCAGAACAACTGGATTTACCTGTGAGACAGGCAGGTGTTATTTATTTAAAAAATATGATAACACAATATTGGCCTGATCGGGAAGCCACACCAGGGGACATCGCTCCATATACTATTCCAGAAGAAGACCGGCATTGTATTCGAGAAAATATTGTAGAAGCCATTATCCACTCACCTGAGCTTATCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCCAGAAGAAGACCGGCATT
59.02
AACACCTGCCTGTCTCACAG
59.89
159
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TTCCAGAAGAAGACCGGCAT
59.02
AACACCTGCCTGTCTCACAG
59.89
160
PCR template sequence:
CACCAGGGGACATCGCTCCATATACTATTCCAGAAGAAGACCGGCATTGTATTCGAGAAAATATTGTAGAAGCCATTATCCACTCACCTGAGCTTATCAGGCACACAAGTCTCTGAATTTCGTTTCAACACTGCTCCAGATTACTATGTCAGAACAACTGGATTTACCTGTGAGACAGGCAGGTGTTATTTATTTAAAAA
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
CTGAGCTTATCAGGCACACAAGTCTC
siRNA sets
TTGTGTGCCTGATAAGCTC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCIPO7_236_ORF_1
0.9372
0.00387487
0.119027709
207
ORF sequence:
ATGTCAGAACAACTGGATTTACCTGTGAGACAGGCAGGTGTTATTTATTTAAAAAATATGATAACACAATATTGGCCTGATCGGGAAGCCACACCAGGGGACATCGCTCCATATACTATTCCAGAAGAAGACCGGCATTGTATTCGAGAAAATATTGTAGAAGCCATTATCCACTCACCTGAGCTTATCAGGCACACAAGTCTCTGA
Peptide sequence:
MSEQLDLPVRQAGVIYLKNMITQYWPDREATPGDIAPYTIPEEDRHCIRENIVEAIIHSPELIRHTSL
IRESfinder result
IRESfinder score
0.738843386
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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