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mmu_circTtc3_507
Basic information of circular RNA
PanCircBase ID:
mmu_circTtc3_507
mm39_Chr. Position ID:
chr16|94186194|94194033|+
Gene name:
Ttc3
Transcript:
ENSMUST00000117648.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
5,6,7,8,9,10
Exon/intron offsets:
0,2001,2929,4866,6679,7776
Genomic length:
7839
Exon/intron sizes in nt:
88,54,121,86,95,63
Flanking exon/introns:
chr16:94185793-94186194|chr16:94194033-94204172
Splice length:
507
Other database IDs:
circAtlas: mmu-Ttc3_0058
Human Ortholog IDs:
Mature spliced Sequence:
CCGTTCTCGTGCTGCTGAGATAAGTTTGAAGAAATTACAACATCTTGAGTTGATGGAAGACATTGTGGATTTGGCAAAGAAAGTTGCAAATGATTCATTCCTTATTGAAGGCTTATTGAAAATTGGTTATAAAATAGAAAATAAAATCTTGGCAATGGAAGATGCTTTAAATTGGATAAAATACACGGGTGATGTAACAATTCTACCTAAATTAGGATCAGTTGACAATTGCTGGCCCATGCTAAGTATTTTCTTTACTGAATATAAGTACCATATTACTAGAGTTGTAACTGAAAATTGCAACTTGCTAGAAGAATTTAGAAGGCATAGTTGCATGCAGTGTGTGAAGCAAGGAGAACTCATGAAAATGAGAGGAAATGAAGAGTTCTCAAAGGAAAAGTTTGAAATAGCTGTTATTTATTACACCAGAGCCATTGAATATAGACCTGAAAACCATCTTCTTTATGGTAACCGAGCTCTCTGTTTTCTTCGTATGGGGCAGTTTAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACCAGAGCCATTGAATATAGACCT
59.09
GCCAAATCCACAATGTCTTCCA
59.44
158
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACCAGAGCCATTGAATATAGACCT
59.09
TGCCAAATCCACAATGTCTTCC
59.44
159
PCR template sequence:
TAGCTGTTATTTATTACACCAGAGCCATTGAATATAGACCTGAAAACCATCTTCTTTATGGTAACCGAGCTCTCTGTTTTCTTCGTATGGGGCAGTTTAGCCGTTCTCGTGCTGCTGAGATAAGTTTGAAGAAATTACAACATCTTGAGTTGATGGAAGACATTGTGGATTTGGCAAAGAAAGTTGCAAATGATTCATTC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-16-5p(1), mmu-miR-15a-5p(1), mmu-miR-15b-5p(1), mmu-miR-217-5p(1), mmu-miR-377-3p(1), mmu-miR-335-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TGGGGCAGTTTAGCCGTTCTCGTGCT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTTC3_507_ORF_1
0.7099
-0.071954848
0.936244165
960
ORF sequence:
ATGGAAGACATTGTGGATTTGGCAAAGAAAGTTGCAAATGATTCATTCCTTATTGAAGGCTTATTGAAAATTGGTTATAAAATAGAAAATAAAATCTTGGCAATGGAAGATGCTTTAAATTGGATAAAATACACGGGTGATGTAACAATTCTACCTAAATTAGGATCAGTTGACAATTGCTGGCCCATGCTAAGTATTTTCTTTACTGAATATAAGTACCATATTACTAGAGTTGTAACTGAAAATTGCAACTTGCTAGAAGAATTTAGAAGGCATAGTTGCATGCAGTGTGTGAAGCAAGGAGAACTCATGAAAATGAGAGGAAATGAAGAGTTCTCAAAGGAAAAGTTTGAAATAGCTGTTATTTATTACACCAGAGCCATTGAATATAGACCTGAAAACCATCTTCTTTATGGTAACCGAGCTCTCTGTTTTCTTCGTATGGGGCAGTTTAGCCGTTCTCGTGCTGCTGAGATAAGTTTGAAGAAATTACAACATCTTGAGTTGATGGAAGACATTGTGGATTTGGCAAAGAAAGTTGCAAATGATTCATTCCTTATTGAAGGCTTATTGAAAATTGGTTATAAAATAGAAAATAAAATCTTGGCAATGGAAGATGCTTTAAATTGGATAAAATACACGGGTGATGTAACAATTCTACCTAAATTAGGATCAGTTGACAATTGCTGGCCCATGCTAAGTATTTTCTTTACTGAATATAAGTACCATATTACTAGAGTTGTAACTGAAAATTGCAACTTGCTAGAAGAATTTAGAAGGCATAGTTGCATGCAGTGTGTGAAGCAAGGAGAACTCATGAAAATGAGAGGAAATGAAGAGTTCTCAAAGGAAAAGTTTGAAATAGCTGTTATTTATTACACCAGAGCCATTGAATATAGACCTGAAAACCATCTTCTTTATGGTAACCGAGCTCTCTGTTTTCTTCGTATGGGGCAGTTT
Peptide sequence:
MEDIVDLAKKVANDSFLIEGLLKIGYKIENKILAMEDALNWIKYTGDVTILPKLGSVDNCWPMLSIFFTEYKYHITRVVTENCNLLEEFRRHSCMQCVKQGELMKMRGNEEFSKEKFEIAVIYYTRAIEYRPENHLLYGNRALCFLRMGQFSRSRAAEISLKKLQHLELMEDIVDLAKKVANDSFLIEGLLKIGYKIENKILAMEDALNWIKYTGDVTILPKLGSVDNCWPMLSIFFTEYKYHITRVVTENCNLLEEFRRHSCMQCVKQGELMKMRGNEEFSKEKFEIAVIYYTRAIEYRPENHLLYGNRALCFLRMGQF
IRESfinder result
IRESfinder score
0.811713557
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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