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mmu_circPan3_266
Basic information of circular RNA
PanCircBase ID:
mmu_circPan3_266
mm39_Chr. Position ID:
chr5|147424920|147440012|+
Gene name:
Pan3
Transcript:
ENSMUST00000177465.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
5,6
Exon/intron offsets:
0,14974
Genomic length:
15092
Exon/intron sizes in nt:
1,48,118
Flanking exon/introns:
chr5:147403907-147424920|chr5:147440012-147456314
Splice length:
266
Other database IDs:
CIRCpedia: MMU_CIRCpedia_213082, circAtlas: mmu-Pan3_0051
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
ACACCAAATCCTACTGCAAGCGAATTTATACCTAAAGGAGGATCAACCTCCAGGCTGAGTAACGTGTCCCAGTCAAATATGTCTGCCTTCTCTCAAGTTTTCTCTCACCCATCCATGGGAAGTCCTGCTACTGCTGGATTAGCACCAGGGAACAAGCTACCCTCTGAGTCAGCACTGGACTTGAAGATAAATCCTACAGTTCATGAAACAGACTGATTCGACTAAAGGATGGATAGTTTGGGCAGCGTTGGACAGCTCTATGAGGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGTCAGCACTGGACTTGAAGA
58.96
CACGTTACTCAGCCTGGAGG
60.11
166
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGTCAGCACTGGACTTGAAGA
58.96
ACTGGGACACGTTACTCAGC
59.68
173
PCR template sequence:
AGTCAGCACTGGACTTGAAGATAAATCCTACAGTTCATGAAACAGACTGATTCGACTAAAGGATGGATAGTTTGGGCAGCGTTGGACAGCTCTATGAGGGACACCAAATCCTACTGCAAGCGAATTTATACCTAAAGGAGGATCAACCTCCAGGCTGAGTAACGTGTCCCAGTCAAATATGTCTGCCTTCTCTCAAGTTT
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
AGCTCTATGAGGGACACCAAATCCTA
siRNA sets
TTTGGTGTCCCTCATAGAG, TTGGTGTCCCTCATAGAGC, ATTTGGTGTCCCTCATAGA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPAN3_266_ORF_3
0.7877
-0.00866273
0.042626164
99
ORF sequence:
ATGAAACAGACTGATTCGACTAAAGGATGGATAGTTTGGGCAGCGTTGGACAGCTCTATGAGGGACACCAAATCCTACTGCAAGCGAATTTATACCTAA
Peptide sequence:
MKQTDSTKGWIVWAALDSSMRDTKSYCKRIYT
IRESfinder result
IRESfinder score
0.622609732
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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