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mmu_circGpc4_159
Basic information of circular RNA
PanCircBase ID:
mmu_circGpc4_159
mm39_Chr. Position ID:
chrX|51180518|51180677|-
Gene name:
Gpc4
Transcript:
ENSMUST00000033450.3
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
1
Exon/intron indexes:
2
Exon/intron offsets:
0
Genomic length:
159
Exon/intron sizes in nt:
159
Flanking exon/introns:
chrX:51163562-51180518|chrX:51180677-51253492
Splice length:
159
Other database IDs:
CIRCpedia: MMU_CIRCpedia_22270, circAtlas: mmu-Gpc4_0001
Human Ortholog IDs:
Mature spliced Sequence:
GTGACCATTTGAAGATCTGTCCCCAGGATTATACATGCTGTTCTCAAGAGATGGAAGAGAAGTACAGCCTGCAAAGTAAAGATGATTTCAAAACCGTGGTCAGCGAACAGTGCAACCATTTGCAAGCCATCTTTGCATCCCGTTACAAGAAGTTTGATG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CAGCGAACAGTGCAACCATT
59.69
GCAGGCTGTACTTCTCTTCCA
59.72
131
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CAGCGAACAGTGCAACCATT
59.69
TGCAGGCTGTACTTCTCTTCC
59.72
132
PCR template sequence:
GATGATTTCAAAACCGTGGTCAGCGAACAGTGCAACCATTTGCAAGCCATCTTTGCATCCCGTTACAAGAAGTTTGATGGTGACCATTTGAAGATCTGTCCCCAGGATTATACATGCTGTTCTCAAGAGATGGAAGAGAAGTACAGCCTGCAAAGTAA
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-16-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AAGAAGTTTGATGGTGACCATTTGAA
siRNA sets
TTCAAATGGTCACCATCAA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCGPC4_159_ORF_1
0.8897
0.359481178
0.450282499
267
ORF sequence:
ATGGAAGAGAAGTACAGCCTGCAAAGTAAAGATGATTTCAAAACCGTGGTCAGCGAACAGTGCAACCATTTGCAAGCCATCTTTGCATCCCGTTACAAGAAGTTTGATGGTGACCATTTGAAGATCTGTCCCCAGGATTATACATGCTGTTCTCAAGAGATGGAAGAGAAGTACAGCCTGCAAAGTAAAGATGATTTCAAAACCGTGGTCAGCGAACAGTGCAACCATTTGCAAGCCATCTTTGCATCCCGTTACAAGAAGTTTGAT
Peptide sequence:
MEEKYSLQSKDDFKTVVSEQCNHLQAIFASRYKKFDGDHLKICPQDYTCCSQEMEEKYSLQSKDDFKTVVSEQCNHLQAIFASRYKKFD
IRESfinder result
IRESfinder score
0.617717491
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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