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mmu_circDnttip1_166
Basic information of circular RNA
PanCircBase ID:
mmu_circDnttip1_166
mm39_Chr. Position ID:
chr2|164601171|164605201|+
Gene name:
Dnttip1
Transcript:
ENSMUST00000017443.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
8,9,10
Exon/intron offsets:
0,3817,3969
Genomic length:
4030
Exon/intron sizes in nt:
46,59,61
Flanking exon/introns:
chr2:164599979-164601171|chr2:164605201-164607080
Splice length:
166
Other database IDs:
CIRCpedia: MMU_CIRCpedia_11483, circAtlas: mmu-Dnttip1_0002
Human Ortholog IDs:
Mature spliced Sequence:
ATGGAAACAAAAATCCTGTGAACCAATTCGCCGAGAAGGCCCCAAGTGGGACCCAGCTCGGCTGAATGAATCTACCACCTTTGTTTTGGGGTCTCGAGCCAACAAGGCCTTGGGGATGGGAGGCACCAGAGGGAGAATCTACATCAAGCACCCACACCTCTTTAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGGCACCAGAGGGAGAATCT
59.96
GGTAGATTCATTCAGCCGAGC
58.86
122
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGGCACCAGAGGGAGAATCT
59.96
AGGTGGTAGATTCATTCAGCCG
60.16
126
PCR template sequence:
TTTTGGGGTCTCGAGCCAACAAGGCCTTGGGGATGGGAGGCACCAGAGGGAGAATCTACATCAAGCACCCACACCTCTTTAAGATGGAAACAAAAATCCTGTGAACCAATTCGCCGAGAAGGCCCCAAGTGGGACCCAGCTCGGCTGAATGAATCTACCACCTTTG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
1
Interacting miRNAs (#binding sites)
mmu-miR-324-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ACACCTCTTTAAGATGGAAACAAAAA
siRNA sets
TTTGTTTCCATCTTAAAGA, TTGTTTCCATCTTAAAGAG, TTTTGTTTCCATCTTAAAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCDNTTIP1_166_ORF_1
0.4844
0.011343416
0.084945714
267
ORF sequence:
ATGAATCTACCACCTTTGTTTTGGGGTCTCGAGCCAACAAGGCCTTGGGGATGGGAGGCACCAGAGGGAGAATCTACATCAAGCACCCACACCTCTTTAAGATGGAAACAAAAATCCTGTGAACCAATTCGCCGAGAAGGCCCCAAGTGGGACCCAGCTCGGCTGAATGAATCTACCACCTTTGTTTTGGGGTCTCGAGCCAACAAGGCCTTGGGGATGGGAGGCACCAGAGGGAGAATCTACATCAAGCACCCACACCTCTTTAAG
Peptide sequence:
MNLPPLFWGLEPTRPWGWEAPEGESTSSTHTSLRWKQKSCEPIRREGPKWDPARLNESTTFVLGSRANKALGMGGTRGRIYIKHPHLFK
IRESfinder result
IRESfinder score
0.580143417
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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