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mmu_circPard3b_274
Basic information of circular RNA
PanCircBase ID:
mmu_circPard3b_274
mm39_Chr. Position ID:
chr1|61807106|62049637|+
Gene name:
Pard3b
Transcript:
ENSMUST00000138768.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
2,3
Exon/intron offsets:
0,242359
Genomic length:
242531
Exon/intron sizes in nt:
1,02,172
Flanking exon/introns:
chr1:61678521-61807106|chr1:62049637-62115543
Splice length:
274
Other database IDs:
circBase: hsa_circ_0057883, CIRCpedia: HSA_CIRCpedia_69729
Human Ortholog IDs:
Mature spliced Sequence:
GATCCTGGATACTGGGTGAAGATTCATCACTTAGAATACACAGATGGAGGAATCCTGGATCCGGATGATGTCTTAGCAGATGTTGTTGAAGACAAAGATAAGCTGATTGCTGTGTTTGACGAACAAGAGCCACTCCAAAAGACTGAGAGCCCCGGTGGAAACCCTGCGGATCGGCAGAGCCCAGATGCTTTCGAGACAGAAGTGGCTGCCCAACTGGCTGCATTTAAACCTGTCGGTGGGGAAATCGTAGTAACCCCTTCTGCTCTGAAGTTAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGCCCAGATGCTTTCGAGAC
60.11
TCCGGATCCAGGATTCCTCC
60.47
162
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CAGAGCCCAGATGCTTTCGA
60.11
TCCGGATCCAGGATTCCTCC
60.47
165
PCR template sequence:
CAGAGCCCAGATGCTTTCGAGACAGAAGTGGCTGCCCAACTGGCTGCATTTAAACCTGTCGGTGGGGAAATCGTAGTAACCCCTTCTGCTCTGAAGTTAGGATCCTGGATACTGGGTGAAGATTCATCACTTAGAATACACAGATGGAGGAATCCTGGATCCGGATGATGTCTTAGCAGATGTTGTTGAAGACAAAGATA
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-375-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GCTCTGAAGTTAGGATCCTGGATACT
siRNA sets
ATCCAGGATCCTAACTTCA, AGGATCCTAACTTCAGAGC, TATCCAGGATCCTAACTTC
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
0.352382379
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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