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mmu_ciTrim26_165
Basic information of circular RNA
PanCircBase ID:
mmu_ciTrim26_165
mm39_Chr. Position ID:
chr17|37168455|37168620|+
Gene name:
Trim26
Transcript:
ENSMUST00000124136.2
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
5
Exon/intron offsets:
0
Genomic length:
165
Exon/intron sizes in nt:
165
Flanking exon/introns:
chr17:37168455-37168633
Splice length:
165
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTATACTGGGAAGTAGAGTTGGAGAGAGAAGGCTGGTCAGAGGATGAAGAAGAGGGGGAGGAGGAAGAAGAAGGGGAAGAAGAGGAAGAAGACGAGGAGGTTGGCTATGGGGACGGATACGAAGACTGGGAAACAGATGAAGAAGACGAATCACTGGGGGAAGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GACGAGGAGGTTGGCTATGG
59.89
CCTCCTCCCCCTCTTCTTCA
59.96
139
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AAGAAGACGAGGAGGTTGGC
59.68
CCTCCTCCCCCTCTTCTTCA
59.96
144
PCR template sequence:
GGAAGAAGACGAGGAGGTTGGCTATGGGGACGGATACGAAGACTGGGAAACAGATGAAGAAGACGAATCACTGGGGGAAGAGGTATACTGGGAAGTAGAGTTGGAGAGAGAAGGCTGGTCAGAGGATGAAGAAGAGGGGGAGGAGGAAGAAGAAGGGGAAGAAG
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-207(1)
siRNAs for circular RNA silencing
Junction sequence
ACTGGGGGAAGAGGTATACTGGGAAG
siRNA sets
TTCCCAGTATACCTCTTCC, TCCCAGTATACCTCTTCCC, CTTCCCAGTATACCTCTTC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CITRIM26_165_ORF_1
0.9424
0.185619215
0.148863243
138
ORF sequence:
ATGAAGAAGAGGGGGAGGAGGAAGAAGAAGGGGAAGAAGAGGAAGAAGACGAGGAGGTTGGCTATGGGGACGGATACGAAGACTGGGAAACAGATGAAGAAGACGAATCACTGGGGGAAGAGGTATACTGGGAAGTAG
Peptide sequence:
MKKRGRRKKKGKKRKKTRRLAMGTDTKTGKQMKKTNHWGKRYTGK
IRESfinder result
IRESfinder score
0.141822367
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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