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mmu_circPpp1r9a_1177
Basic information of circular RNA
PanCircBase ID:
mmu_circPpp1r9a_1177
mm39_Chr. Position ID:
chr6|5110999|5143489|+
Gene name:
Ppp1r9a
Transcript:
ENSMUST00000176263.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
9,10,11,12,13,14,15,16
Exon/intron offsets:
0,2601,4119,4309,23017,23639,32228,32406
Genomic length:
32490
Exon/intron sizes in nt:
54,230,97,172,158,294,88,84
Flanking exon/introns:
chr6:5100587-5110999|chr6:5143489-5154008
Splice length:
1177
Other database IDs:
circAtlas: hsa-PPP1R9A_0098, CIRCpedia: HSA_CIRCpedia_168327
Human Ortholog IDs:
Mature spliced Sequence:
TTGCAAATCAAACATGCAGTTACAGAAGCAGAGATTCAAAAATTGAAGACCAAGCTTCAAGCAGCCGAAAATGAGAAAGTAAGGTGGGAACTAGAAAAGAACCAACTGCAACAGAATATAGAAGAGAATAAAGAACGGATGCTGAAGTTGGAGAGCTACTGGATCGAGGCTCAGACATTATGTCATACGGTGAATGAGCATCTCAAAGAGACTCAGAGCCAGTACCAAGCCCTGGAAAAGAAATACAACAAAGCAAAGAAGCTGATCAAAGACTTCCAGCAAAAAGAGCTCGATTTCATCAAGAGACAGGAAGTAGAAAGAAAGAAGCGGGAGGAGGTGGAAAAGGCTCACCTGCTTGAAGTCCAAGGCCTGCAAGTTCGGATTAGAGATTTGGAGGCTGAGGTGTTCAGACTACTAAAGCAAAATGGGACCCAGGTTAACAACAACAACAACATCTTTGAGAGAAGACCATCTCCCGGGGAAGTCTCGAAAGGAGACACTATGGAGAATGTGGAAGTCAAGCAAACATCCTGTCAGGACGGCTTGAGCCAAGACCTGAATGAAGCAGTCCCAGAGACAGAGCGCCTGGATTCGAAAGCATTGAAAACCCGGGCCCAGCTCTCTGTGAAGAACAGGCGCCAGAGGCCCACAAGGACACGGCTCTATGACAGCGTCAGCTCAACTGATGGGGAGGACAGCCTGGAGAGGAAGCCCTCAGACACTATAACCACACATATGTTACCAAATCGCTTCTGCCCAAGGCTTGGAGAGTTTCTTCTCCAGAATCGGAGTGTGGTGTCACACTCCTCACCCCCGTGACGAGCCCTAGGGCCTTCTCATCCCACCACACGACTGAGTCTCCAGGAGGATCACAGCATCCAGAAGGGGACCCTTTCTCCTCTATCTCGGGAGACACTTCATCCTCCTCGACTTCAGCATCCGATCATGACACAGAAGACTCTCCTTGCTGCCACCAAGCCACTGAGAAAGCGTTACAAGAGAAAGATGATGACAAATATCCTAAATCACTAAGAACATCCAGTTCATTTGTGGTACAAAGAGGAAAAATTAAGCAGAAGTTTGCGGATCTGGGGGCACCTTTGCGAAGGAATCCCAACAAGGGGAAGAAACGGAAAGACAAAGAAAAGGAAGCCAGTAGGTTTTCTGCTGGTAGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCGAAGGAATCCCAACAAGG
59.19
TTTCGGCTGCTTGAAGCTTG
59.69
145
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCGAAGGAATCCCAACAAGG
59.19
GGCTGCTTGAAGCTTGGTCT
60.89
141
PCR template sequence:
AGTTTGCGGATCTGGGGGCACCTTTGCGAAGGAATCCCAACAAGGGGAAGAAACGGAAAGACAAAGAAAAGGAAGCCAGTAGGTTTTCTGCTGGTAGCAGTTGCAAATCAAACATGCAGTTACAGAAGCAGAGATTCAAAAATTGAAGACCAAGCTTCAAGCAGCCGAAAATGAGAAAGTAAGGTGGGAACTAGAAAAGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
11
Interacting miRNAs (#binding sites)
mmu-miR-122-5p(1), mmu-miR-18a-5p(1), mmu-miR-326-3p(1), mmu-miR-149-5p(1), mmu-miR-433-3p(1), mmu-miR-676-3p(1), mmu-miR-425-5p(1), mmu-miR-466a-5p(1), mmu-miR-1187(1), mmu-miR-466p-5p(1), mmu-miR-207(1)
siRNAs for circular RNA silencing
Junction sequence
CTGCTGGTAGCAGTTGCAAATCAAAC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.437919436
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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