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mmu_circPan3_474
Basic information of circular RNA
PanCircBase ID:
mmu_circPan3_474
mm39_Chr. Position ID:
chr5|147473210|147480018|+
Gene name:
Pan3
Transcript:
ENSMUST00000031651.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
14,15,16,17
Exon/intron offsets:
0,2842,3341,6669
Genomic length:
6808
Exon/intron sizes in nt:
14,01,30,65,139
Flanking exon/introns:
chr5:147468117-147473210|chr5:147480018-147482415
Splice length:
474
Other database IDs:
CIRCpedia: MMU_CIRCpedia_9800, circAtlas: mmu-Pan3_0032
Human Ortholog IDs:
Mature spliced Sequence:
CAAGCAGATCTGATATCATTAGGAAAAGTTGTGTTGGCTTTGGCTTGCAACTCTTTGGCAGGAATTCAGCGAGAAAATTTACAGAAAGCCATGGAATTGGTGACAATCAACTACTCCTCTGACCTGAAGAACCTCATCTTGTACTTGTTGACTGACCAAAACAGGATGCGGAGTGTGAATGACATCATGCCCATGATTGGTGCTCGGTTTTACACTCAATTGGATGCTGCTCAAATGAGAAATGATGTTATCGAGGAAGACCTTGCTAAGGAGGTTCAAAATGGAAGACTGTTTAGGCTTCTAGCAAAATTGGGAACAATCAACGAGAGGCCGGAGTTTCAGAAGGATCCAACCTGGTCAGAGACTGGAGACAGATACCTGTTGAAACTCTTTAGAGATCATCTTTTTCATCAGGTGACAGAAGCAGGTGCTCCCTGGATCGACCTCAGTCACATCATTTCTTGTCTTAACAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ATCAGGTGACAGAAGCAGGTG
60
TTCTCGCTGAATTCCTGCCA
59.68
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CATCAGGTGACAGAAGCAGGT
60
TCTCGCTGAATTCCTGCCAA
59.68
140
PCR template sequence:
ATACCTGTTGAAACTCTTTAGAGATCATCTTTTTCATCAGGTGACAGAAGCAGGTGCTCCCTGGATCGACCTCAGTCACATCATTTCTTGTCTTAACAAGCAAGCAGATCTGATATCATTAGGAAAAGTTGTGTTGGCTTTGGCTTGCAACTCTTTGGCAGGAATTCAGCGAGAAAATTTACAGAAAGCCATGGAATTGG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
7
Interacting miRNAs (#binding sites)
mmu-miR-134-5p(1), mmu-miR-16-5p(1), mmu-miR-15a-5p(1), mmu-miR-135a-5p(1), mmu-miR-212-3p(1), mmu-miR-540-3p(1), mmu-miR-544-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TTGTCTTAACAAGCAAGCAGATCTGA
siRNA sets
ATCTGCTTGCTTGTTAAGA, TCTGCTTGCTTGTTAAGAC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPAN3_474_ORF_1
1.071
0.174234593
0.974178562
858
ORF sequence:
ATGGAATTGGTGACAATCAACTACTCCTCTGACCTGAAGAACCTCATCTTGTACTTGTTGACTGACCAAAACAGGATGCGGAGTGTGAATGACATCATGCCCATGATTGGTGCTCGGTTTTACACTCAATTGGATGCTGCTCAAATGAGAAATGATGTTATCGAGGAAGACCTTGCTAAGGAGGTTCAAAATGGAAGACTGTTTAGGCTTCTAGCAAAATTGGGAACAATCAACGAGAGGCCGGAGTTTCAGAAGGATCCAACCTGGTCAGAGACTGGAGACAGATACCTGTTGAAACTCTTTAGAGATCATCTTTTTCATCAGGTGACAGAAGCAGGTGCTCCCTGGATCGACCTCAGTCACATCATTTCTTGTCTTAACAAGCAAGCAGATCTGATATCATTAGGAAAAGTTGTGTTGGCTTTGGCTTGCAACTCTTTGGCAGGAATTCAGCGAGAAAATTTACAGAAAGCCATGGAATTGGTGACAATCAACTACTCCTCTGACCTGAAGAACCTCATCTTGTACTTGTTGACTGACCAAAACAGGATGCGGAGTGTGAATGACATCATGCCCATGATTGGTGCTCGGTTTTACACTCAATTGGATGCTGCTCAAATGAGAAATGATGTTATCGAGGAAGACCTTGCTAAGGAGGTTCAAAATGGAAGACTGTTTAGGCTTCTAGCAAAATTGGGAACAATCAACGAGAGGCCGGAGTTTCAGAAGGATCCAACCTGGTCAGAGACTGGAGACAGATACCTGTTGAAACTCTTTAGAGATCATCTTTTTCATCAGGTGACAGAAGCAGGTGCTCCCTGGATCGACCTCAGTCACATCATTTCTTGTCTTAACAAG
Peptide sequence:
MELVTINYSSDLKNLILYLLTDQNRMRSVNDIMPMIGARFYTQLDAAQMRNDVIEEDLAKEVQNGRLFRLLAKLGTINERPEFQKDPTWSETGDRYLLKLFRDHLFHQVTEAGAPWIDLSHIISCLNKQADLISLGKVVLALACNSLAGIQRENLQKAMELVTINYSSDLKNLILYLLTDQNRMRSVNDIMPMIGARFYTQLDAAQMRNDVIEEDLAKEVQNGRLFRLLAKLGTINERPEFQKDPTWSETGDRYLLKLFRDHLFHQVTEAGAPWIDLSHIISCLNK
IRESfinder result
IRESfinder score
0.660317243
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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