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mmu_circTtc23_278
Basic information of circular RNA
PanCircBase ID:
mmu_circTtc23_278
mm39_Chr. Position ID:
chr7|67359071|67361251|+
Gene name:
Ttc23
Transcript:
ENSMUST00000032774.16
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
9,10
Exon/intron offsets:
0,2030
Genomic length:
2180
Exon/intron sizes in nt:
128,150
Flanking exon/introns:
chr7:67348077-67359071|chr7:67361251-67374981
Splice length:
278
Other database IDs:
CIRCpedia: MMU_CIRCpedia_26839, circAtlas: mmu-Ttc23_0009
circAtlas: hsa-TTC23_0006, CIRCpedia: HSA_CIRCpedia_16258
Human Ortholog IDs:
Mature spliced Sequence:
ATGTGGCCGAGAAATACTTTCAGGAAAGCATGACTTCTATCAAGGATTCCGAAGGAGCGGAAAGAGCCAAGTTCCTTTCGATTCAAGATGAGTTTTGCAGTTTTCTGCAAACCACCGGACAAAAAGAAAGAGCGGCCATGATCCTGAGAGAGTCCCTGGAAGCCAAAGTAGGAGCATTTGGTGACTTCAGTCCTGAGGTGGCAGAAACGTACCGGGCCCTGGGCAGGGCAGACCTGGCGCAGGGAAACAACAGTGGAGCGTACGCGAAGCTAAAGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGAGGTGGCAGAAACGTACC
59.97
CGCTCCTTCGGAATCCTTGA
59.82
144
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTTCAGTCCTGAGGTGGCAG
60.04
CGCTCCTTCGGAATCCTTGA
59.82
153
PCR template sequence:
TGGTGACTTCAGTCCTGAGGTGGCAGAAACGTACCGGGCCCTGGGCAGGGCAGACCTGGCGCAGGGAAACAACAGTGGAGCGTACGCGAAGCTAAAGAAGATGTGGCCGAGAAATACTTTCAGGAAAGCATGACTTCTATCAAGGATTCCGAAGGAGCGGAAAGAGCCAAGTTCCTTTCGATTCAAGATGAGTTTTGCAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-1904(2), mmu-miR-224-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GAAGCTAAAGAAGATGTGGCCGAGAA
siRNA sets
TTCTCGGCCACATCTTCTT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTTC23_278_ORF_1
0.8427
0.212507033
0.313209313
282
ORF sequence:
ATGACTTCTATCAAGGATTCCGAAGGAGCGGAAAGAGCCAAGTTCCTTTCGATTCAAGATGAGTTTTGCAGTTTTCTGCAAACCACCGGACAAAAAGAAAGAGCGGCCATGATCCTGAGAGAGTCCCTGGAAGCCAAAGTAGGAGCATTTGGTGACTTCAGTCCTGAGGTGGCAGAAACGTACCGGGCCCTGGGCAGGGCAGACCTGGCGCAGGGAAACAACAGTGGAGCGTACGCGAAGCTAAAGAAGATGTGGCCGAGAAATACTTTCAGGAAAGCATGA
Peptide sequence:
MTSIKDSEGAERAKFLSIQDEFCSFLQTTGQKERAAMILRESLEAKVGAFGDFSPEVAETYRALGRADLAQGNNSGAYAKLKKMWPRNTFRKA
IRESfinder result
IRESfinder score
0.371372388
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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