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mmu_ciTom1l1_330
Basic information of circular RNA
PanCircBase ID:
mmu_ciTom1l1_330
mm39_Chr. Position ID:
chr11|90540281|90540611|-
Gene name:
Tom1l1
Transcript:
ENSMUST00000020849.9
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
13
Exon/intron offsets:
0
Genomic length:
330
Exon/intron sizes in nt:
330
Flanking exon/introns:
chr11:90540249-90540611
Splice length:
330
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTATGCAAAAGCCTACCCTTTGCATCAAGTAAGTAAACTTGTGAGAATGCCGGAATCTGCCAGAAATGATTACCTCAAAATAGGGGAGAATTATGGAGAGCTCACTGTTCATTGAAGCTACATGTAATAAACTCAGGGATGACACCCTTTTGACTCCCATTAGTTGAGGCCTGGGAAACATTTTCTATACAGACCTGTGGAACTCAGTATCATTTGAACAGTCTGTCTTGGTTGTATTTGTTAGACTCATATACTTAAAATCTAAATTACATATTCAATAGTTATATTAAATAGATATGGATTGGACGTACTCTTCCCAAGCACAGTGTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ATAGATATGGATTGGACGTACTCTTCC
59.88
CTCTCCATAATTCTCCCCTATTTTGA
58.25
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ATAGATATGGATTGGACGTACTCTTCC
59.88
CTCTCCATAATTCTCCCCTATTTTGAG
59.12
140
PCR template sequence:
GTTGTATTTGTTAGACTCATATACTTAAAATCTAAATTACATATTCAATAGTTATATTAAATAGATATGGATTGGACGTACTCTTCCCAAGCACAGTGTGGTATGCAAAAGCCTACCCTTTGCATCAAGTAAGTAAACTTGTGAGAATGCCGGAATCTGCCAGAAATGATTACCTCAAAATAGGGGAGAATTATGGAGAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-125b-5p(1), mmu-miR-433-5p(1), mmu-miR-344d-3p(1), mmu-miR-670-5p(1), mmu-miR-7a-1-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CAAGCACAGTGTGGTATGCAAAAGCC
siRNA sets
TTTTGCATACCACACTGTG, CTTTTGCATACCACACTGT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.784821229
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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