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mmu_circMed17_375
Basic information of circular RNA
PanCircBase ID:
mmu_circMed17_375
mm39_Chr. Position ID:
chr9|15183802|15185881|-
Gene name:
Med17
Transcript:
ENSMUST00000034411.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
6,5,4
Exon/intron offsets:
0,1778,1942
Genomic length:
2079
Exon/intron sizes in nt:
1,53,85,137
Flanking exon/introns:
chr9:15183037-15183802|chr9:15185881-15187141
Splice length:
375
Other database IDs:
CIRCpedia: MMU_CIRCpedia_220246, circAtlas: mmu-Med17_0002
circAtlas: hsa-MED17_0002
Human Ortholog IDs:
Mature spliced Sequence:
GTTCTCTCTTTCCTCATCATGGTACCTTTGAAGTGATAAAGAATACAGACATTGACTTGGATAAGAAGATACCAGAAGATTACTGTCCTCTGGATGTCCAAATTCCTAGTGATTTAGAGGGGTCTGCGTATATCAAGGTTTCTATTCAGAAACAGGCTCCAGACATTGGTGATCTTGGCACAGTTAACCTTTTTAAGAGACCTTTGCCCAAATCCAAGCCAGGTTCCCCACACTGGCAGACAAAATTAGAAGCAGCACAAAATGTTCTTCTTTGTAAAGAAATTTTTGCACAGCTCTCCCGGGAAGCCGTTCAGATTAAGTCTCAGATCCCTCACATTGTGGTGAAAAACCAGATCATCTCTCAGCCCTTTCCAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCGGGAAGCCGTTCAGATTA
59.82
TGGACATCCAGAGGACAGTA
57.08
177
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCGGGAAGCCGTTCAGATTA
59.82
TGGACATCCAGAGGACAGTAA
57.82
177
PCR template sequence:
AAAGAAATTTTTGCACAGCTCTCCCGGGAAGCCGTTCAGATTAAGTCTCAGATCCCTCACATTGTGGTGAAAAACCAGATCATCTCTCAGCCCTTTCCAAGTTCTCTCTTTCCTCATCATGGTACCTTTGAAGTGATAAAGAATACAGACATTGACTTGGATAAGAAGATACCAGAAGATTACTGTCCTCTGGATGTCCA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-199a-5p(1), mmu-miR-19a-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CAGCCCTTTCCAAGTTCTCTCTTTCC
siRNA sets
AAGAGAGAACTTGGAAAGG,AGAGAGAACTTGGAAAGGG,GAGAGAACTTGGAAAGGGC
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
0.880743867
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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