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mmu_circIpo11_245
Basic information of circular RNA
PanCircBase ID:
mmu_circIpo11_245
mm39_Chr. Position ID:
chr13|107019349|107023265|-
Gene name:
Ipo11
Transcript:
ENSMUST00000186033.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
14,13,12
Exon/intron offsets:
0,684,3825
Genomic length:
3916
Exon/intron sizes in nt:
106,48,91
Flanking exon/introns:
chr13:107016247-107019349|chr13:107023265-107025870
Splice length:
245
Other database IDs:
circBase: hsa_circ_0072635, circAtlas: hsa-IPO11_0064, CIRCpedia: HSA_CIRCpedia_52119
Human Ortholog IDs:
Mature spliced Sequence:
CCTTGCACTGAAGTATTATTTATAGATATATTCCACGAATATAATCAAACTCTTACTCCTGTACTTCTAGAAATGATGCAAACTCTTGAAGGTCCAACCAATGTAGAAGATATGAATGCACTGTTAATCAAAGATGCTGTGTATAATGCTGTGGGATTAGCTGCTTTTGAGCTGTTTGACAGTGTTGATTTTGATCAGTGGTTTAAAACCCAACTTCTTCCCGAATTACAAGTTTCTCATAATAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AAAACCCAACTTCTTCCCGA
57.26
GGTTGGACCTTCAAGAGTTTGC
59.97
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AAAACCCAACTTCTTCCCGAA
57.98
GGTTGGACCTTCAAGAGTTTGC
59.97
140
PCR template sequence:
ATGCTGTGGGATTAGCTGCTTTTGAGCTGTTTGACAGTGTTGATTTTGATCAGTGGTTTAAAACCCAACTTCTTCCCGAATTACAAGTTTCTCATAATAGCCTTGCACTGAAGTATTATTTATAGATATATTCCACGAATATAATCAAACTCTTACTCCTGTACTTCTAGAAATGATGCAAACTCTTGAAGGTCCAACCA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
7
Interacting miRNAs (#binding sites)
mmu-miR-200a-3p(1), mmu-miR-141-3p(1), mmu-miR-103-3p(1), mmu-miR-152-3p(1), mmu-miR-148b-3p(1), mmu-miR-148a-3p(1), mmu-miR-107-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TTTCTCATAATAGCCTTGCACTGAAG
siRNA sets
AGTGCAAGGCTATTATGAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCIPO11_245_ORF_1
1.1158
-0.077019339
0.112482979
198
ORF sequence:
ATGATGCAAACTCTTGAAGGTCCAACCAATGTAGAAGATATGAATGCACTGTTAATCAAAGATGCTGTGTATAATGCTGTGGGATTAGCTGCTTTTGAGCTGTTTGACAGTGTTGATTTTGATCAGTGGTTTAAAACCCAACTTCTTCCCGAATTACAAGTTTCTCATAATAGCCTTGCACTGAAGTATTATTTATAG
Peptide sequence:
MMQTLEGPTNVEDMNALLIKDAVYNAVGLAAFELFDSVDFDQWFKTQLLPELQVSHNSLALKYYL
IRESfinder result
IRESfinder score
0.833444261
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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