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mmu_circIkzf2_258
Basic information of circular RNA
PanCircBase ID:
mmu_circIkzf2_258
mm39_Chr. Position ID:
chr1|69722368|69724956|-
Gene name:
Ikzf2
Transcript:
ENSMUST00000187184.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
4,3,2
Exon/intron offsets:
0,914,2484
Genomic length:
2588
Exon/intron sizes in nt:
1,05,49,104
Flanking exon/introns:
chr1:69617206-69722368|chr1:69724956-69726199
Splice length:
258
Other database IDs:
circBase: mmu_circ_0008920
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_39542
Human Ortholog IDs:
Mature spliced Sequence:
CCCGACATTGTCACCTCCTCCTTGAGGGGTTAGAAGAAGCTGGGAGCTCCCGACAGAGCTGGAAATGGTGATGACTGTTTTTTAATCAGAGGACAATTTCTTTTCACTGCACTTTGACTATGGAAACAGACGCAATTGATGGCTATATAACATGTGACAATGAGCTTTCACCCGAAGGGGAACACGCCAATATGGCCATTGACCTCACCTCAAGCACACCCAATGGACAGCACGCCTCGCCAAGTCACATGACAAGCA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGGGGAACACGCCAATATGG
60.11
ACCATTTCCAGCTCTGTCGG
60.04
152
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGGGGAACACGCCAATATGG
60.11
CATTTCCAGCTCTGTCGGGA
59.75
150
PCR template sequence:
AATGAGCTTTCACCCGAAGGGGAACACGCCAATATGGCCATTGACCTCACCTCAAGCACACCCAATGGACAGCACGCCTCGCCAAGTCACATGACAAGCACCCGACATTGTCACCTCCTCCTTGAGGGGTTAGAAGAAGCTGGGAGCTCCCGACAGAGCTGGAAATGGTGATGACTGTTTTTTAATCAGAGGACAATTTC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-132-3p(1), mmu-miR-212-3p(1), mmu-miR-218-5p(1), mmu-miR-539-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CACATGACAAGCACCCGACATTGTCA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCIKZF2_258_ORF_1
0.6419
0.154343111
0.128415993
210
ORF sequence:
ATGGAAACAGACGCAATTGATGGCTATATAACATGTGACAATGAGCTTTCACCCGAAGGGGAACACGCCAATATGGCCATTGACCTCACCTCAAGCACACCCAATGGACAGCACGCCTCGCCAAGTCACATGACAAGCACCCGACATTGTCACCTCCTCCTTGAGGGGTTAGAAGAAGCTGGGAGCTCCCGACAGAGCTGGAAATGGTGA
Peptide sequence:
METDAIDGYITCDNELSPEGEHANMAIDLTSSTPNGQHASPSHMTSTRHCHLLLEGLEEAGSSRQSWKW
IRESfinder result
IRESfinder score
0.525440044
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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