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mmu_circPrune2_496
Basic information of circular RNA
PanCircBase ID:
mmu_circPrune2_496
mm39_Chr. Position ID:
chr19|17170619|17179092|+
Gene name:
Prune2
Transcript:
ENSMUST00000087689.5
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
12,13,14,15
Exon/intron offsets:
0,5857,6525,8386
Genomic length:
8473
Exon/intron sizes in nt:
174,103,132,87
Flanking exon/introns:
chr19:17156354-17170619|chr19:17179092-17185594
Splice length:
496
Other database IDs:
circAtlas: mmu-Prune2_0004
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_140841
Human Ortholog IDs:
Mature spliced Sequence:
AAGATCCCACGGCCAACAAAAGCTCTGGTCAAGAGTCAGAGTCTATTCCAGAATATACGGCTGAAGAGGAGCGAGAAGACAACCGGCTGTGGAGGACGGTGGTCATCGGGGAGCAGGAGCAACGGATTGACATGAAGGTCATTGAACCCTACAGGAGAGTCATTTCTCACGGAGGATACTATGGGGACGGTCTGAATGCCATCATTGTGTTTGCTGCCTGCTTTCTGCCAGACAGCAGCCGGGCGGATTACCACTATGTCATGGAAAACCTTTTCCTATATGTAATAAGTACCTTAGAGCTGATGGTTGCTGAAGACTACATGATCGTGTACTTAAATGGTGCAACCCCAAGGCGGAAGATGCCAGGACTAGGTTGGATGAAGAAATGCTACCAGATGATTGACAGACGGTTGCGCAAGAATTTGAAGTCATTCATCATTGTTCACCCATCTTGGTTCATCAGGACAATCTTAGCAGTGACTCGGCCTTTTATAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CAGACGGTTGCGCAAGAATT
59.76
CTTCTCGCTCCTCTTCAGCC
60.18
171
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CAGACGGTTGCGCAAGAATT
59.76
CGGTTGTCTTCTCGCTCCTC
60.46
178
PCR template sequence:
TGATTGACAGACGGTTGCGCAAGAATTTGAAGTCATTCATCATTGTTCACCCATCTTGGTTCATCAGGACAATCTTAGCAGTGACTCGGCCTTTTATAAGAAGATCCCACGGCCAACAAAAGCTCTGGTCAAGAGTCAGAGTCTATTCCAGAATATACGGCTGAAGAGGAGCGAGAAGACAACCGGCTGTGGAGGACGGT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-680(1), mmu-miR-539-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GGCCTTTTATAAGAAGATCCCACGGC
siRNA sets
GATCTTCTTATAAAAGGCC, GGATCTTCTTATAAAAGGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPRUNE2_496_ORF_1
0.7908
0.092964369
0.420720648
429
ORF sequence:
ATGAAGGTCATTGAACCCTACAGGAGAGTCATTTCTCACGGAGGATACTATGGGGACGGTCTGAATGCCATCATTGTGTTTGCTGCCTGCTTTCTGCCAGACAGCAGCCGGGCGGATTACCACTATGTCATGGAAAACCTTTTCCTATATGTAATAAGTACCTTAGAGCTGATGGTTGCTGAAGACTACATGATCGTGTACTTAAATGGTGCAACCCCAAGGCGGAAGATGCCAGGACTAGGTTGGATGAAGAAATGCTACCAGATGATTGACAGACGGTTGCGCAAGAATTTGAAGTCATTCATCATTGTTCACCCATCTTGGTTCATCAGGACAATCTTAGCAGTGACTCGGCCTTTTATAAGAAGATCCCACGGCCAACAAAAGCTCTGGTCAAGAGTCAGAGTCTATTCCAGAATATACGGCTGA
Peptide sequence:
MKVIEPYRRVISHGGYYGDGLNAIIVFAACFLPDSSRADYHYVMENLFLYVISTLELMVAEDYMIVYLNGATPRRKMPGLGWMKKCYQMIDRRLRKNLKSFIIVHPSWFIRTILAVTRPFIRRSHGQQKLWSRVRVYSRIYG
IRESfinder result
IRESfinder score
0.360963836
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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