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mmu_circPan3_163
Basic information of circular RNA
PanCircBase ID:
mmu_circPan3_163
mm39_Chr. Position ID:
chr5|147458639|147460043|+
Gene name:
Pan3
Transcript:
ENSMUST00000031651.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
7,8
Exon/intron offsets:
0,1346
Genomic length:
1404
Exon/intron sizes in nt:
105,58
Flanking exon/introns:
chr5:147456562-147458639|chr5:147460043-147463328
Splice length:
163
Other database IDs:
circAtlas: mmu-Pan3_0030
circBase: hsa_circ_0029855, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_10489
Human Ortholog IDs:
Mature spliced Sequence:
GTATTTCCAAACTATCATATTTATCCTCCAACCGCACCTCATGTTGCTTATATGCAACCAAAAGCAAATGCACCTTCCTTCTTCATGGCCGACGAGCTCCGACAGGAGCTGATCAACAGACATTTAATAACGATGGCTCAAATTGACCAAGCAGATATGCCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCGACAGGAGCTGATCAACA
59.75
GGTGCATTTGCTTTTGGTTGC
60
139
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCCGACAGGAGCTGATCAAC
59.47
GGTGCATTTGCTTTTGGTTGC
60
140
PCR template sequence:
TCATGGCCGACGAGCTCCGACAGGAGCTGATCAACAGACATTTAATAACGATGGCTCAAATTGACCAAGCAGATATGCCAGGTATTTCCAAACTATCATATTTATCCTCCAACCGCACCTCATGTTGCTTATATGCAACCAAAAGCAAATGCACCTTCCTTC
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-18a-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GCAGATATGCCAGGTATTTCCAAACT
siRNA sets
GAAATACCTGGCATATCTG, TTTGGAAATACCTGGCATA, AAATACCTGGCATATCTGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPAN3_163_ORF_1
0.5972
0.059938427
0.115748817
258
ORF sequence:
ATGCAACCAAAAGCAAATGCACCTTCCTTCTTCATGGCCGACGAGCTCCGACAGGAGCTGATCAACAGACATTTAATAACGATGGCTCAAATTGACCAAGCAGATATGCCAGGTATTTCCAAACTATCATATTTATCCTCCAACCGCACCTCATGTTGCTTATATGCAACCAAAAGCAAATGCACCTTCCTTCTTCATGGCCGACGAGCTCCGACAGGAGCTGATCAACAGACATTTAATAACGATGGCTCAAATTGA
Peptide sequence:
MQPKANAPSFFMADELRQELINRHLITMAQIDQADMPGISKLSYLSSNRTSCCLYATKSKCTFLLHGRRAPTGADQQTFNNDGSN
IRESfinder result
IRESfinder score
0.371139115
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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