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mmu_circPan3_940
Basic information of circular RNA
PanCircBase ID:
mmu_circPan3_940
mm39_Chr. Position ID:
chr5|147424920|147464040|+
Gene name:
Pan3
Transcript:
ENSMUST00000031651.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
5,6,7,8,9,10,11
Exon/intron offsets:
0,31394,33719,35065,38408,38814,39018
Genomic length:
39120
Exon/intron sizes in nt:
1,48,24,81,05,58,16,21,00,000
Flanking exon/introns:
chr5:147391998-147424920|chr5:147464040-147466764
Splice length:
940
Other database IDs:
CIRCpedia: MMU_CIRCpedia_9781, circAtlas: mmu-Pan3_0025
Human Ortholog IDs:
Mature spliced Sequence:
ACACCAAATCCTACTGCAAGCGAATTTATACCTAAAGGAGGATCAACCTCCAGGCTGAGTAACGTGTCCCAGTCAAATATGTCTGCCTTCTCTCAAGTTTTCTCTCACCCATCCATGGGAAGTCCTGCTACTGCTGGATTAGCACCAGGAATGTCACTGTCTGCTGGATCTTCCCCTCTCCATTCCCCCAAAATTACTCCACACACCTCTCCTGCTCCTAGAAGAAGAAGCCACACTCCAAACCCAGCAAGTTTCATGGTGCCGCCTAGTGCCTCCACTCCTGCCAATAACCCTGCTCCTCAGCCTCCGTCCTCTGGTCAGGTGATCCAGAAGGAGACTGTCGGGGGGACGACTTACTTCTATACAGATACAACCCCAGCACCTTTGACTGGAATGGTATTTCCAAACTATCATATTTATCCTCCAACCGCACCTCATGTTGCTTATATGCAACCAAAAGCAAATGCACCTTCCTTCTTCATGGCCGACGAGCTCCGACAGGAGCTGATCAACAGACATTTAATAACGATGGCTCAAATTGACCAAGCAGATATGCCAGCAGTCCCCACAGAAGTTGACAGCTACCATAGCCTGTTCCCTCTAGAACCACTGCCACCTCCCAACCGGATACAGAAATCAAGTAATTTTGGATATATCACGTCTTGCTACAAAGCTGTAAATAGCAAAGATGATCTGCCATATTGCCTTCGGAGGATACATGGTTTTCGTCTTGTTAACACAAAGTGCATGGTGTTGGTTGATATGTGGAAAAAAATTCAGCACTCAAATATTGTAACTCTGCGTGAAGTGTTTACCACTAAAGCATTTGCCGAGCCTTCTCTGGTGTTCGCCTATGATTTCCATGCTGGAGGAGAAACTATGATGAGCAGACACTTTAACGACCCGAATTCTGATGCCTACTTCACAAAGAGGAAGTGGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CGCCTATGATTTCCATGCTGG
59.46
CACGTTACTCAGCCTGGAGG
60.11
158
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCCATGCTGGAGGAGAAACT
58.34
CACGTTACTCAGCCTGGAGG
60.11
147
PCR template sequence:
CTGGTGTTCGCCTATGATTTCCATGCTGGAGGAGAAACTATGATGAGCAGACACTTTAACGACCCGAATTCTGATGCCTACTTCACAAAGAGGAAGTGGGACACCAAATCCTACTGCAAGCGAATTTATACCTAAAGGAGGATCAACCTCCAGGCTGAGTAACGTGTCCCAGTCAAATATGTCTGCCTTCTCTCAAGTTT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
10
Interacting miRNAs (#binding sites)
mmu-miR-140-5p(1), mmu-miR-30e-5p(1), mmu-miR-34a-5p(1), mmu-miR-30a-5p(1), mmu-miR-30c-5p(1), mmu-miR-18a-5p(1), mmu-miR-184-3p(1), mmu-miR-30b-5p(1), mmu-miR-705(1), mmu-miR-452-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AAGAGGAAGTGGGACACCAAATCCTA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPAN3_940_ORF_1
1.0087
0.048304442
0.977184812
966
ORF sequence:
ATGCCTACTTCACAAAGAGGAAGTGGGACACCAAATCCTACTGCAAGCGAATTTATACCTAAAGGAGGATCAACCTCCAGGCTGAGTAACGTGTCCCAGTCAAATATGTCTGCCTTCTCTCAAGTTTTCTCTCACCCATCCATGGGAAGTCCTGCTACTGCTGGATTAGCACCAGGAATGTCACTGTCTGCTGGATCTTCCCCTCTCCATTCCCCCAAAATTACTCCACACACCTCTCCTGCTCCTAGAAGAAGAAGCCACACTCCAAACCCAGCAAGTTTCATGGTGCCGCCTAGTGCCTCCACTCCTGCCAATAACCCTGCTCCTCAGCCTCCGTCCTCTGGTCAGGTGATCCAGAAGGAGACTGTCGGGGGGACGACTTACTTCTATACAGATACAACCCCAGCACCTTTGACTGGAATGGTATTTCCAAACTATCATATTTATCCTCCAACCGCACCTCATGTTGCTTATATGCAACCAAAAGCAAATGCACCTTCCTTCTTCATGGCCGACGAGCTCCGACAGGAGCTGATCAACAGACATTTAATAACGATGGCTCAAATTGACCAAGCAGATATGCCAGCAGTCCCCACAGAAGTTGACAGCTACCATAGCCTGTTCCCTCTAGAACCACTGCCACCTCCCAACCGGATACAGAAATCAAGTAATTTTGGATATATCACGTCTTGCTACAAAGCTGTAAATAGCAAAGATGATCTGCCATATTGCCTTCGGAGGATACATGGTTTTCGTCTTGTTAACACAAAGTGCATGGTGTTGGTTGATATGTGGAAAAAAATTCAGCACTCAAATATTGTAACTCTGCGTGAAGTGTTTACCACTAAAGCATTTGCCGAGCCTTCTCTGGTGTTCGCCTATGATTTCCATGCTGGAGGAGAAACTATGATGAGCAGACACTTTAACGACCCGAATTCTGATGCCTACTTCACAAAGAGGAAGTGG
Peptide sequence:
MPTSQRGSGTPNPTASEFIPKGGSTSRLSNVSQSNMSAFSQVFSHPSMGSPATAGLAPGMSLSAGSSPLHSPKITPHTSPAPRRRSHTPNPASFMVPPSASTPANNPAPQPPSSGQVIQKETVGGTTYFYTDTTPAPLTGMVFPNYHIYPPTAPHVAYMQPKANAPSFFMADELRQELINRHLITMAQIDQADMPAVPTEVDSYHSLFPLEPLPPPNRIQKSSNFGYITSCYKAVNSKDDLPYCLRRIHGFRLVNTKCMVLVDMWKKIQHSNIVTLREVFTTKAFAEPSLVFAYDFHAGGETMMSRHFNDPNSDAYFTKRKW
IRESfinder result
IRESfinder score
0.621023877
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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