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mmu_circPi4ka_311
Basic information of circular RNA
PanCircBase ID:
mmu_circPi4ka_311
mm39_Chr. Position ID:
chr16|17120854|17121307|-
Gene name:
Pi4ka
Transcript:
ENSMUST00000036161.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
34,33
Exon/intron offsets:
0,294
Genomic length:
453
Exon/intron sizes in nt:
1,52,159
Flanking exon/introns:
chr16:17118964-17120854|chr16:17121307-17125566
Splice length:
311
Other database IDs:
circBase: mmu_circ_0006107, CIRCpedia: MMU_CIRCpedia_11881, circAtlas: mmu-Pi4ka_0022
Human Ortholog IDs:
Mature spliced Sequence:
TTTATGCGGGAGATGGCAGGAGCCTGGCACATGACAGTAGAGCAGAAGTTCGGCCTCTTTTCTGTGGAAACAAAGGAAGCAGACCCCCTGGCAGCATCAGAAGCAAGTCAGCCAAGACCTTGTCCCCCCGAAGTGACACCTCACTACATCTGGATCGATTTCCTGGTCCAGCGGTTTGAGATTGCCAAGTACTGTAGCTCTGACCAGGTGGAGATCTTCTCAAGCCTGCTGCAGCGCTCCATGTCCCTCAATATTGGTGGAGCCAGGGGGAGCATGAACAGGCATGTGGCAGCCATTGGACCACGTTTCAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCGCTCCATGTCCCTCAATA
59.89
GGGGGTCTGCTTCCTTTGTT
60.18
166
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCTTCTCAAGCCTGCTGCAG
60.32
AAGAGGCCGAACTTCTGCTC
60.04
156
PCR template sequence:
AGATCTTCTCAAGCCTGCTGCAGCGCTCCATGTCCCTCAATATTGGTGGAGCCAGGGGGAGCATGAACAGGCATGTGGCAGCCATTGGACCACGTTTCAATTTATGCGGGAGATGGCAGGAGCCTGGCACATGACAGTAGAGCAGAAGTTCGGCCTCTTTTCTGTGGAAACAAAGGAAGCAGACCCCCTGGCAGCATCAG
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-101a-3p(1), mmu-miR-101b-3p(1), mmu-miR-139-5p(1), mmu-miR-182-5p(1), mmu-miR-484(1), mmu-miR-540-3p(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
GACCACGTTTCAATTTATGCGGGAGA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPI4KA_311_ORF_1
0.7058
0.252617624
0.39071088
342
ORF sequence:
ATGCGGGAGATGGCAGGAGCCTGGCACATGACAGTAGAGCAGAAGTTCGGCCTCTTTTCTGTGGAAACAAAGGAAGCAGACCCCCTGGCAGCATCAGAAGCAAGTCAGCCAAGACCTTGTCCCCCCGAAGTGACACCTCACTACATCTGGATCGATTTCCTGGTCCAGCGGTTTGAGATTGCCAAGTACTGTAGCTCTGACCAGGTGGAGATCTTCTCAAGCCTGCTGCAGCGCTCCATGTCCCTCAATATTGGTGGAGCCAGGGGGAGCATGAACAGGCATGTGGCAGCCATTGGACCACGTTTCAATTTATGCGGGAGATGGCAGGAGCCTGGCACATGA
Peptide sequence:
MREMAGAWHMTVEQKFGLFSVETKEADPLAASEASQPRPCPPEVTPHYIWIDFLVQRFEIAKYCSSDQVEIFSSLLQRSMSLNIGGARGSMNRHVAAIGPRFNLCGRWQEPGT
IRESfinder result
IRESfinder score
0.363648563
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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