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mmu_circSnx29_190
Basic information of circular RNA
PanCircBase ID:
mmu_circSnx29_190
mm39_Chr. Position ID:
chr16|11328823|11389669|+
Gene name:
Snx29
Transcript:
ENSMUST00000180792.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
14,15
Exon/intron offsets:
0,60739
Genomic length:
60846
Exon/intron sizes in nt:
83,107
Flanking exon/introns:
chr16:11265372-11328823|chr16:11389669-11449321
Splice length:
190
Other database IDs:
circBase: mmu_circ_0006063, CIRCpedia: MMU_CIRCpedia_3776, circAtlas: mmu-Snx29_0001
Human Ortholog IDs:
Mature spliced Sequence:
AGAAAACGAGGTGCTCAAAGTCCAGCTGAAGAAATATGTAGGAGCTGTCCAGATGCTGAAAAGAGAAGGTCAAACAGCTGAAGCTGTACCTAGTCTCTGGAACGTTGATGCAGAAGTCACAGTCCCTGAACAGAAGCCTGGGGAAGTTGCTGAGGAACTAGCAAGCTCCTACGAGAGGAAACTCATTGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACAGAAGCCTGGGGAAGTTG
59.89
TTCAGCATCTGGACAGCTCC
59.75
121
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GTCCCTGAACAGAAGCCTGG
60.32
TTCAGCATCTGGACAGCTCC
59.75
129
PCR template sequence:
TCTGGAACGTTGATGCAGAAGTCACAGTCCCTGAACAGAAGCCTGGGGAAGTTGCTGAGGAACTAGCAAGCTCCTACGAGAGGAAACTCATTGAGAGAAAACGAGGTGCTCAAAGTCCAGCTGAAGAAATATGTAGGAGCTGTCCAGATGCTGAAAAGAGAAGGTCAAACAGCTGAAGCTGTACCTAGTC
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
GAAACTCATTGAGAGAAAACGAGGTG
siRNA sets
TTTTCTCTCAATGAGTTTC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSNX29_190_ORF_1
1.0501
0.086923839
0.203686009
219
ORF sequence:
ATGCTGAAAAGAGAAGGTCAAACAGCTGAAGCTGTACCTAGTCTCTGGAACGTTGATGCAGAAGTCACAGTCCCTGAACAGAAGCCTGGGGAAGTTGCTGAGGAACTAGCAAGCTCCTACGAGAGGAAACTCATTGAGAGAAAACGAGGTGCTCAAAGTCCAGCTGAAGAAATATGTAGGAGCTGTCCAGATGCTGAAAAGAGAAGGTCAAACAGCTGA
Peptide sequence:
MLKREGQTAEAVPSLWNVDAEVTVPEQKPGEVAEELASSYERKLIERKRGAQSPAEEICRSCPDAEKRRSNS
IRESfinder result
IRESfinder score
0.363352574
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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