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mmu_circPrpf8_147
Basic information of circular RNA
PanCircBase ID:
mmu_circPrpf8_147
mm39_Chr. Position ID:
chr11|75386855|75387002|+
Gene name:
Prpf8
Transcript:
ENSMUST00000018449.11
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
1
Exon/intron indexes:
21
Exon/intron offsets:
0
Genomic length:
147
Exon/intron sizes in nt:
147
Flanking exon/introns:
chr11:75386646-75386855|chr11:75387002-75387166
Splice length:
147
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTTCACAGCAGATGAGGCTCGGGATCTGATCCAGCGTTACCTGACAGAACACCCAGACCCCAACAATGAAAACATTGTTGGCTACAATAACAAGAAATGCTGGCCCCGAGATGCCCGAATGCGGCTCATGAAGCATGATGTCAACTT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GAAATGCTGGCCCCGAGAT
60.15
TTGTTGGGGTCTGGGTGTTC
60.11
120
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GAAATGCTGGCCCCGAGAT
60.15
TCATTGTTGGGGTCTGGGTG
59.89
123
PCR template sequence:
TTGTTGGCTACAATAACAAGAAATGCTGGCCCCGAGATGCCCGAATGCGGCTCATGAAGCATGATGTCAACTTGTTCACAGCAGATGAGGCTCGGGATCTGATCCAGCGTTACCTGACAGAACACCCAGACCCCAACAATGAAAAC
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-335-3p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ATGATGTCAACTTGTTCACAGCAGAT
siRNA sets
CTGCTGTGAACAAGTTGAC, ATCTGCTGTGAACAAGTTG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPRPF8_147_ORF_1
1.2377
0.540224676
0.626228668
174
ORF sequence:
ATGCGGCTCATGAAGCATGATGTCAACTTGTTCACAGCAGATGAGGCTCGGGATCTGATCCAGCGTTACCTGACAGAACACCCAGACCCCAACAATGAAAACATTGTTGGCTACAATAACAAGAAATGCTGGCCCCGAGATGCCCGAATGCGGCTCATGAAGCATGATGTCAAC
Peptide sequence:
MRLMKHDVNLFTADEARDLIQRYLTEHPDPNNENIVGYNNKKCWPRDARMRLMKHDVN
IRESfinder result
IRESfinder score
0.231791242
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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