top of page
mmu_circTtc17_421
Basic information of circular RNA
PanCircBase ID:
mmu_circTtc17_421
mm39_Chr. Position ID:
chr2|94196866|94202242|-
Gene name:
Ttc17
Transcript:
ENSMUST00000111237.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
11,10,9
Exon/intron offsets:
0,2791,5215
Genomic length:
5376
Exon/intron sizes in nt:
14,71,13,161
Flanking exon/introns:
chr2:94195034-94196866|chr2:94202242-94204862
Splice length:
421
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTCCCTTCAGAGAACGCTGAACGAGTTGAAGGAGTACCAGAAACAGCATGACCACTACCTCCGGCAGCAGGAGATCCTGGAGAAGCACAAGCTGATTCAGGAGGAGCAGATCCTGCGCAACATCATCCACGAGACGCAGATGGCAAAAGAGGCGCAGCTGGGAAATCATCAGATATGCCGGCTGGTCAACCAGCAGCATAGCTTGCACTGCCAATGGGACCAACCTGTGCGCTACCATCGAGGAGATATCTTTGAAAATGTGGACTATGTTCAGTTTGGTGATGATTCGTCAACCTCCAGTATGATGTCCGTGAACTTCGATGTTCCTACAAATCAGAGTGATGTCAGCGAGTCTGTCAGGTCTTCTCCTGTAGCCCATTCTGTTCTCTGGGTCTGGGGCCGTGACTCTGATGCGTATAGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GTCAGCGAGTCTGTCAGGTC
60.11
CGGAGGTAGTGGTCATGCTG
60.18
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCAGCGAGTCTGTCAGGTCT
60.25
CGGAGGTAGTGGTCATGCTG
60.18
140
PCR template sequence:
TGTTCCTACAAATCAGAGTGATGTCAGCGAGTCTGTCAGGTCTTCTCCTGTAGCCCATTCTGTTCTCTGGGTCTGGGGCCGTGACTCTGATGCGTATAGGGTCCCTTCAGAGAACGCTGAACGAGTTGAAGGAGTACCAGAAACAGCATGACCACTACCTCCGGCAGCAGGAGATCCTGGAGAAGCACAAGCTGATTCAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
11
Interacting miRNAs (#binding sites)
mmu-let-7a-5p(1), mmu-let-7e-5p(1), mmu-let-7b-5p(1), mmu-miR-34c-5p(1), mmu-miR-34a-5p(1), mmu-let-7c-5p(1), mmu-miR-196a-5p(1), mmu-let-7d-5p(1), mmu-miR-34b-5p(1), mmu-miR-98-5p(1), mmu-miR-207(1)
siRNAs for circular RNA silencing
Junction sequence
TGATGCGTATAGGGTCCCTTCAGAGA
siRNA sets
CTGAAGGGACCCTATACGC, TCTGAAGGGACCCTATACG, TGAAGGGACCCTATACGCA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTTC17_421_ORF_1
1.126
0.426877604
0.844740038
432
ORF sequence:
ATGCGTATAGGGTCCCTTCAGAGAACGCTGAACGAGTTGAAGGAGTACCAGAAACAGCATGACCACTACCTCCGGCAGCAGGAGATCCTGGAGAAGCACAAGCTGATTCAGGAGGAGCAGATCCTGCGCAACATCATCCACGAGACGCAGATGGCAAAAGAGGCGCAGCTGGGAAATCATCAGATATGCCGGCTGGTCAACCAGCAGCATAGCTTGCACTGCCAATGGGACCAACCTGTGCGCTACCATCGAGGAGATATCTTTGAAAATGTGGACTATGTTCAGTTTGGTGATGATTCGTCAACCTCCAGTATGATGTCCGTGAACTTCGATGTTCCTACAAATCAGAGTGATGTCAGCGAGTCTGTCAGGTCTTCTCCTGTAGCCCATTCTGTTCTCTGGGTCTGGGGCCGTGACTCTGATGCGTATAGG
Peptide sequence:
MRIGSLQRTLNELKEYQKQHDHYLRQQEILEKHKLIQEEQILRNIIHETQMAKEAQLGNHQICRLVNQQHSLHCQWDQPVRYHRGDIFENVDYVQFGDDSSTSSMMSVNFDVPTNQSDVSESVRSSPVAHSVLWVWGRDSDAYR
IRESfinder result
IRESfinder score
0.302576189
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page