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mmu_circPi4ka_809
Basic information of circular RNA
PanCircBase ID:
mmu_circPi4ka_809
mm39_Chr. Position ID:
chr16|17120854|17130335|-
Gene name:
Pi4ka
Transcript:
ENSMUST00000036161.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
34,33,32,31,30,29
Exon/intron offsets:
0,294,4712,5075,6315,9361
Genomic length:
9481
Exon/intron sizes in nt:
152,159,128,157,93,120
Flanking exon/introns:
chr16:17118964-17120854|chr16:17130335-17133412
Splice length:
809
Other database IDs:
CIRCpedia: MMU_CIRCpedia_11882
Human Ortholog IDs:
Mature spliced Sequence:
GAATATCTGAACAAGCATCAGAACTGGGTGTCAGGACTGTCTCAGCACACAGGATTGGCCATGGCCACTGAGAGCATCCTTCATTTTGCCGGCTACAACAAGCAGAACACAACTCTTGGGGCAACTCAGCTAACTGAGCGTCCGGCCTGTGTGAAGAAAGACTACTCCAACTTCATGGCATCCTTGAATTTGCGCAACCGCTATGCCGGCGAGGTACATGGAATGATTCGGTTCTCAGGTGCCACAGGCCAGATGTCTGACCTGAACAAAATGATGGTCCAAGATCTGATCACAGCTTTGGACCACAGTCATCCTCAGCACTATACACAAGCCATGTTCAAATTGACGGCAATGCTCATTAGCAGCAAAGATTGTGATCCACAGCTCCTTCATCATCTGTGTTGGGGTCCCCTCCGAATGTTCAATGAGCATGGCATGGAGACTGCACTAGCCTGCTGGGAGTGGCTGCTGGCTGGCAAGAATGGAGTGGAAGTGCCGTTTATGCGGGAGATGGCAGGAGCCTGGCACATGACAGTAGAGCAGAAGTTCGGCCTCTTTTCTGTGGAAACAAAGGAAGCAGACCCCCTGGCAGCATCAGAAGCAAGTCAGCCAAGACCTTGTCCCCCCGAAGTGACACCTCACTACATCTGGATCGATTTCCTGGTCCAGCGGTTTGAGATTGCCAAGTACTGTAGCTCTGACCAGGTGGAGATCTTCTCAAGCCTGCTGCAGCGCTCCATGTCCCTCAATATTGGTGGAGCCAGGGGGAGCATGAACAGGCATGTGGCAGCCATTGGACCACGTTTCAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCGCTCCATGTCCCTCAATA
59.89
TGAAGGATGCTCTCAGTGGC
59.75
161
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCTTCTCAAGCCTGCTGCAG
60.32
GCTGAGACAGTCCTGACACC
60.04
143
PCR template sequence:
AGATCTTCTCAAGCCTGCTGCAGCGCTCCATGTCCCTCAATATTGGTGGAGCCAGGGGGAGCATGAACAGGCATGTGGCAGCCATTGGACCACGTTTCAAGAATATCTGAACAAGCATCAGAACTGGGTGTCAGGACTGTCTCAGCACACAGGATTGGCCATGGCCACTGAGAGCATCCTTCATTTTGCCGGCTACAACA
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-540-3p(2), mmu-miR-101a-3p(1), mmu-miR-146a-5p(1), mmu-miR-101b-3p(1), mmu-miR-320-3p(1), mmu-miR-139-5p(1), mmu-miR-182-5p(1), mmu-miR-484(1), mmu-miR-1904(1), mmu-miR-146b-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GACCACGTTTCAAGAATATCTGAACA
siRNA sets
ATATTCTTGAAACGTGGTC, GATATTCTTGAAACGTGGT, CAGATATTCTTGAAACGTG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPI4KA_809_ORF_1
0.9123
0.281657023
0.954539119
759
ORF sequence:
ATGGCCACTGAGAGCATCCTTCATTTTGCCGGCTACAACAAGCAGAACACAACTCTTGGGGCAACTCAGCTAACTGAGCGTCCGGCCTGTGTGAAGAAAGACTACTCCAACTTCATGGCATCCTTGAATTTGCGCAACCGCTATGCCGGCGAGGTACATGGAATGATTCGGTTCTCAGGTGCCACAGGCCAGATGTCTGACCTGAACAAAATGATGGTCCAAGATCTGATCACAGCTTTGGACCACAGTCATCCTCAGCACTATACACAAGCCATGTTCAAATTGACGGCAATGCTCATTAGCAGCAAAGATTGTGATCCACAGCTCCTTCATCATCTGTGTTGGGGTCCCCTCCGAATGTTCAATGAGCATGGCATGGAGACTGCACTAGCCTGCTGGGAGTGGCTGCTGGCTGGCAAGAATGGAGTGGAAGTGCCGTTTATGCGGGAGATGGCAGGAGCCTGGCACATGACAGTAGAGCAGAAGTTCGGCCTCTTTTCTGTGGAAACAAAGGAAGCAGACCCCCTGGCAGCATCAGAAGCAAGTCAGCCAAGACCTTGTCCCCCCGAAGTGACACCTCACTACATCTGGATCGATTTCCTGGTCCAGCGGTTTGAGATTGCCAAGTACTGTAGCTCTGACCAGGTGGAGATCTTCTCAAGCCTGCTGCAGCGCTCCATGTCCCTCAATATTGGTGGAGCCAGGGGGAGCATGAACAGGCATGTGGCAGCCATTGGACCACGTTTCAAGAATATCTGA
Peptide sequence:
MATESILHFAGYNKQNTTLGATQLTERPACVKKDYSNFMASLNLRNRYAGEVHGMIRFSGATGQMSDLNKMMVQDLITALDHSHPQHYTQAMFKLTAMLISSKDCDPQLLHHLCWGPLRMFNEHGMETALACWEWLLAGKNGVEVPFMREMAGAWHMTVEQKFGLFSVETKEADPLAASEASQPRPCPPEVTPHYIWIDFLVQRFEIAKYCSSDQVEIFSSLLQRSMSLNIGGARGSMNRHVAAIGPRFKNI
IRESfinder result
IRESfinder score
0.329428219
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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