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mmu_circTtc3_732
Basic information of circular RNA
PanCircBase ID:
mmu_circTtc3_732
mm39_Chr. Position ID:
chr16|94255285|94260961|+
Gene name:
Ttc3
Transcript:
ENSMUST00000117648.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
38,39,40,41,42
Exon/intron offsets:
0,2284,2894,3504,5335
Genomic length:
5676
Exon/intron sizes in nt:
97,10,19,11,02,341
Flanking exon/introns:
chr16:94253891-94255285|chr16:94260961-94263080
Splice length:
732
Other database IDs:
circAtlas: mmu-Ttc3_0093
circBase: hsa_circ_0006075, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_35462
Human Ortholog IDs:
Mature spliced Sequence:
CAGTGCACTCACAGATGAGAAGACAAAAGTAGAAGAGTCTGTCAGGAAAGGGAAAGAGCTCTATGAAGAGAGTCACCAGAGAGCCGTGGCTGCAGAGGTATCTGTTCTTGAAAACTGGAAAGAGCGAGAAGTGTGCAAACTACAGGGTGTGGCGTCACAATCAGAAGCCTATCTTAAAAGCCTCAAGCTGATGAGCAGTGATTCTGCAACGTATCCCGATGTGGAGTATGATATACTTTCATGGGAGTCATTTCTTTCTACTGTAAGAGAAGAGATCGAGAGCAAAAAGTCTCAGTTTGAAGAGCATATTAAGGCCATTAAGAATGGTTCTCGACTCAGTGACCTTTCCAGTGTGCAGCTTTCTGAGGTTTCATTTCCTGGTTGTTCGACGATCCATCCTCAGTTCCTCTCTGAGTCTTCAGGCCATGAGGATCCCGGACTGGTGGCTTGTGTAGACAGCATGACTGGAGCAGTCCTCAATGATCCTTACATGGACTCTGCTAGTGGCTGCCCAGAGGAGGTTCCAGAACTGTCGCTGGGATCACCCACCCATCAGCCAGAAGTTACTCAACAGCTTGAGCTCAAGGGGGCTAGCCAGGTGTCTCCATCAGAACAGAGCCCTGAGGCCGACGAGAAACTATCTGGACAGGCTACTCGGTCAAGCCAGTCTCCAAAAAAGCCTTCCAACAGTATTATTGAACACCTGTCAGTGATATTCCCATGTTATACCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ATCTGGACAGGCTACTCGGT
60.03
CGGCTCTCTGGTGACTCTCT
60.68
179
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGACAGGCTACTCGGTCAAG
59.83
CGGCTCTCTGGTGACTCTCT
60.68
175
PCR template sequence:
AGAAACTATCTGGACAGGCTACTCGGTCAAGCCAGTCTCCAAAAAAGCCTTCCAACAGTATTATTGAACACCTGTCAGTGATATTCCCATGTTATACCAGCAGTGCACTCACAGATGAGAAGACAAAAGTAGAAGAGTCTGTCAGGAAAGGGAAAGAGCTCTATGAAGAGAGTCACCAGAGAGCCGTGGCTGCAGAGGTA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
8
Interacting miRNAs (#binding sites)
mmu-miR-429-3p(1), mmu-miR-196a-5p(1), mmu-miR-320-3p(1), mmu-miR-25-3p(1), mmu-miR-10b-5p(1), mmu-miR-10a-5p(1), mmu-miR-369-3p(1), mmu-miR-3105-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CATGTTATACCAGCAGTGCACTCACA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTTC3_732_ORF_1
1.1201
0.200988485
0.998894764
1272
ORF sequence:
ATGAGCAGTGATTCTGCAACGTATCCCGATGTGGAGTATGATATACTTTCATGGGAGTCATTTCTTTCTACTGTAAGAGAAGAGATCGAGAGCAAAAAGTCTCAGTTTGAAGAGCATATTAAGGCCATTAAGAATGGTTCTCGACTCAGTGACCTTTCCAGTGTGCAGCTTTCTGAGGTTTCATTTCCTGGTTGTTCGACGATCCATCCTCAGTTCCTCTCTGAGTCTTCAGGCCATGAGGATCCCGGACTGGTGGCTTGTGTAGACAGCATGACTGGAGCAGTCCTCAATGATCCTTACATGGACTCTGCTAGTGGCTGCCCAGAGGAGGTTCCAGAACTGTCGCTGGGATCACCCACCCATCAGCCAGAAGTTACTCAACAGCTTGAGCTCAAGGGGGCTAGCCAGGTGTCTCCATCAGAACAGAGCCCTGAGGCCGACGAGAAACTATCTGGACAGGCTACTCGGTCAAGCCAGTCTCCAAAAAAGCCTTCCAACAGTATTATTGAACACCTGTCAGTGATATTCCCATGTTATACCAGCAGTGCACTCACAGATGAGAAGACAAAAGTAGAAGAGTCTGTCAGGAAAGGGAAAGAGCTCTATGAAGAGAGTCACCAGAGAGCCGTGGCTGCAGAGGTATCTGTTCTTGAAAACTGGAAAGAGCGAGAAGTGTGCAAACTACAGGGTGTGGCGTCACAATCAGAAGCCTATCTTAAAAGCCTCAAGCTGATGAGCAGTGATTCTGCAACGTATCCCGATGTGGAGTATGATATACTTTCATGGGAGTCATTTCTTTCTACTGTAAGAGAAGAGATCGAGAGCAAAAAGTCTCAGTTTGAAGAGCATATTAAGGCCATTAAGAATGGTTCTCGACTCAGTGACCTTTCCAGTGTGCAGCTTTCTGAGGTTTCATTTCCTGGTTGTTCGACGATCCATCCTCAGTTCCTCTCTGAGTCTTCAGGCCATGAGGATCCCGGACTGGTGGCTTGTGTAGACAGCATGACTGGAGCAGTCCTCAATGATCCTTACATGGACTCTGCTAGTGGCTGCCCAGAGGAGGTTCCAGAACTGTCGCTGGGATCACCCACCCATCAGCCAGAAGTTACTCAACAGCTTGAGCTCAAGGGGGCTAGCCAGGTGTCTCCATCAGAACAGAGCCCTGAGGCCGACGAGAAACTATCTGGACAGGCTACTCGGTCAAGCCAGTCTCCAAAAAAGCCTTCCAACAGTATTATTGAACACCTGTCAGTGATATTCCCATGTTATACC
Peptide sequence:
MSSDSATYPDVEYDILSWESFLSTVREEIESKKSQFEEHIKAIKNGSRLSDLSSVQLSEVSFPGCSTIHPQFLSESSGHEDPGLVACVDSMTGAVLNDPYMDSASGCPEEVPELSLGSPTHQPEVTQQLELKGASQVSPSEQSPEADEKLSGQATRSSQSPKKPSNSIIEHLSVIFPCYTSSALTDEKTKVEESVRKGKELYEESHQRAVAAEVSVLENWKEREVCKLQGVASQSEAYLKSLKLMSSDSATYPDVEYDILSWESFLSTVREEIESKKSQFEEHIKAIKNGSRLSDLSSVQLSEVSFPGCSTIHPQFLSESSGHEDPGLVACVDSMTGAVLNDPYMDSASGCPEEVPELSLGSPTHQPEVTQQLELKGASQVSPSEQSPEADEKLSGQATRSSQSPKKPSNSIIEHLSVIFPCYT
IRESfinder result
IRESfinder score
0.667292209
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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