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mmu_ciNtrk2_808
Basic information of circular RNA
PanCircBase ID:
mmu_ciNtrk2_808
mm39_Chr. Position ID:
chr13|59007119|59007927|+
Gene name:
Ntrk2
Transcript:
ENSMUST00000225488.2
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
7
Exon/intron offsets:
0
Genomic length:
808
Exon/intron sizes in nt:
808
Flanking exon/introns:
chr13:59007119-59007959
Splice length:
808
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTGAGGCTGAGTTTAGTTCTGTCTTGTAAGGTGACAATGAGGAGACCATATTGAACGTATTGATGACCACTCTCTTAGATTCCTTTTTGGTTGCTCTGATAAAAAGGCCCTGGCAAGAGCCACTTAAAGGAGAAAGGGTTCACTGCGTGCCTAGTCCCAGGTTACATCTCCAGTCCACCCTTAGTGGGAAGTCACAGCCCCAGGAGCTAGTCACAGTAAGTTCACAGCCAAGAGCAAGGAACAGTGAATTAATGCATGTAGCAACTCATTTCTTCTTATCAGCACAAGATCAAAATAGCCACGCCTATATTTTTACAGTGACACCATGACCTGTCACCACAGGTAGTGTGGATAATCCCACTGTTGTTAACCCATTTAAGACAATCTCCCACGAACTAGCCTAACTCAGACAGTTCTCCACTGAGATTCCCTTCCCAGGTGACCCTACATTGTCAAGTTGCTGATCTTTGCTAACCATCAAAGCCACCCAATATTTTATGTGCCTACATGTTGGTATTTATAATGATTTTTAAATGTCATTTAGTTTTTACTTATCTTTAATTAGACAAAGCCAATCTGAAGATTACATTTAATTATGGGTACACATCAGATTATTATTCTGAGCAAGAAAGTGATAGCCCTTTGTAATCTTTTCCCTCGGAGGAAGGTGGGCAAGAATTTAGGGGTTACTTGAGTCTGAAATCTGCAAGGAAAGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTATACTACACTTCACAAAGAAACTCTGATACTTTGGGATTAATTCTAATCAATGTTATTATTA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGTGTGTGTGTGTGTGTGTG
59.13
TGGTCTCCTCATTGTCACCT
57.97
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GTGTGTGTGTGTGTGTGTGT
59.13
TGGTCTCCTCATTGTCACCT
57.97
140
PCR template sequence:
AGGAAAGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTATACTACACTTCACAAAGAAACTCTGATACTTTGGGATTAATTCTAATCAATGTTATTATTAGTGAGGCTGAGTTTAGTTCTGTCTTGTAAGGTGACAATGAGGAGACCATATTGAACGTATTGATGACCACTCTCTTAGATTCCTTTTTGGTTGCTCTGAT
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-466d-3p(2), mmu-miR-466b-3p(2), mmu-miR-124-3p(1), mmu-miR-26a-5p(1), mmu-miR-216a-5p(1), mmu-miR-26b-5p(1), mmu-miR-490-3p(1), mmu-miR-146b-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AATGTTATTATTAGTGAGGCTGAGTT
siRNA sets
NA
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
0.831376005
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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