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mmu_ciPdcd4_691
Basic information of circular RNA
PanCircBase ID:
mmu_ciPdcd4_691
mm39_Chr. Position ID:
chr19|53909746|53910437|+
Gene name:
Pdcd4
Transcript:
ENSMUST00000074371.13
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
7
Exon/intron offsets:
0
Genomic length:
691
Exon/intron sizes in nt:
691
Flanking exon/introns:
chr19:53909746-53910447
Splice length:
691
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGTAAATTCATGTCTGCTACTTAGAATTTCAAAATGAGAAATCCTACAACATTCTGTAACATGACATGGACATGAATCAGACATTGTGAGTGTGTATTTTTCCTTACGGGTTCTTCATTGATAAAAGATGTTGCCGTGGTGCAGCAGGAAGACAGCAGTAATAAAAATGCAGAAGTTCTGAGTTAAACGATGCGGCTCCCTCTTTAAGTTTCCCTCTCAGGGCCTCAGTTTCCCTACTTGTAAAATGAAAGCATTGACTGTGAGTGTCCATGCTACCTTCTGGGTCGGACAGTTGTTTGGTTTAATGATTAGAAGCCAGACTTGCTGCTTGGCTTTTCTAACCTCCTGGAGGCTGACTTAGCCAGCCAGACCTCAGGCTTCCCCAGGTACAGGTACTCAACCCCAGGGGTCTTGGAGGAAGATAAAAGTTGTATATGAATTTATGTTCCTTCCTGGCTACATGACCATTAGTTTGCAATGTATTTTGACGAGAAGTGGTTGTGAAAGAATATGAGAATGTTCAATATTTTAAAAAATACCTAATTTTTATTTGAAGAATTATTTTCTAAAACTACATATTTTTTTGTTACATTAAAGTTGCCAATACATACACAGTTTTGTAAACTTTACTGCTAATGTGGTAAACATCAGGCATGTGCATGTATTATAATGACTTTTCTCTTTTCTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGTAAACATCAGGCATGTGCA
59.18
ACACACTCACAATGTCTGATTCA
58.29
147
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGGTAAACATCAGGCATGTGC
59.18
ACACACTCACAATGTCTGATTCA
58.29
148
PCR template sequence:
ACATTAAAGTTGCCAATACATACACAGTTTTGTAAACTTTACTGCTAATGTGGTAAACATCAGGCATGTGCATGTATTATAATGACTTTTCTCTTTTCTGGTAAGTAAATTCATGTCTGCTACTTAGAATTTCAAAATGAGAAATCCTACAACATTCTGTAACATGACATGGACATGAATCAGACATTGTGAGTGTGTAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
7
Interacting miRNAs (#binding sites)
mmu-miR-15a-5p(1), mmu-miR-322-5p(1), mmu-miR-15b-5p(1), mmu-miR-125b-5p(1), mmu-miR-382-3p(1), mmu-miR-182-5p(1), mmu-miR-369-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TTTCTCTTTTCTGGTAAGTAAATTCA
siRNA sets
ATTTACTTACCAGAAAAGA, TTACTTACCAGAAAAGAGA, AATTTACTTACCAGAAAAG
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
0.787036837
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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