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mmu_circPan3_219
Basic information of circular RNA
PanCircBase ID:
mmu_circPan3_219
mm39_Chr. Position ID:
chr5|147391927|147425068|+
Gene name:
Pan3
Transcript:
ENSMUST00000031651.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
4,5
Exon/intron offsets:
0,32993
Genomic length:
33141
Exon/intron sizes in nt:
71,148
Flanking exon/introns:
chr5:147390128-147391927|chr5:147425068-147456314
Splice length:
219
Other database IDs:
CIRCpedia: MMU_CIRCpedia_9772, circAtlas: mmu-Pan3_0039
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_10469
Human Ortholog IDs:
Mature spliced Sequence:
ATCTTCTGACTTCATCTGCTTCATCCTTGTTTAATGACTTCGGTGCCCTCAACATCTCCCAGAGAAGGAAGACACCAAATCCTACTGCAAGCGAATTTATACCTAAAGGAGGATCAACCTCCAGGCTGAGTAACGTGTCCCAGTCAAATATGTCTGCCTTCTCTCAAGTTTTCTCTCACCCATCCATGGGAAGTCCTGCTACTGCTGGATTAGCACCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCTGAGTAACGTGTCCCAGT
59.68
CTCTGGGAGATGTTGAGGGC
59.82
159
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGCTGAGTAACGTGTCCCAG
60.39
CTCTGGGAGATGTTGAGGGC
59.82
160
PCR template sequence:
TCCAGGCTGAGTAACGTGTCCCAGTCAAATATGTCTGCCTTCTCTCAAGTTTTCTCTCACCCATCCATGGGAAGTCCTGCTACTGCTGGATTAGCACCAGATCTTCTGACTTCATCTGCTTCATCCTTGTTTAATGACTTCGGTGCCCTCAACATCTCCCAGAGAAGGAAGACACCAAATCCTACTGCAAGCGAATTTAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
NA
Interacting miRNAs (#binding sites)
NA
siRNAs for circular RNA silencing
Junction sequence
GGATTAGCACCAGATCTTCTGACTTC
siRNA sets
GAAGATCTGGTGCTAATCC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPAN3_219_ORF_1
0.935
-0.032273696
0.172467745
288
ORF sequence:
ATGTCTGCCTTCTCTCAAGTTTTCTCTCACCCATCCATGGGAAGTCCTGCTACTGCTGGATTAGCACCAGATCTTCTGACTTCATCTGCTTCATCCTTGTTTAATGACTTCGGTGCCCTCAACATCTCCCAGAGAAGGAAGACACCAAATCCTACTGCAAGCGAATTTATACCTAAAGGAGGATCAACCTCCAGGCTGAGTAACGTGTCCCAGTCAAATATGTCTGCCTTCTCTCAAGTTTTCTCTCACCCATCCATGGGAAGTCCTGCTACTGCTGGATTAGCACCA
Peptide sequence:
MSAFSQVFSHPSMGSPATAGLAPDLLTSSASSLFNDFGALNISQRRKTPNPTASEFIPKGGSTSRLSNVSQSNMSAFSQVFSHPSMGSPATAGLAP
IRESfinder result
IRESfinder score
0.669458558
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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