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mmu_circPik3c2a_541
Basic information of circular RNA
PanCircBase ID:
mmu_circPik3c2a_541
mm39_Chr. Position ID:
chr7|115962583|115968093|-
Gene name:
Pik3c2a
Transcript:
ENSMUST00000170430.3
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
17,16,15,14
Exon/intron offsets:
0,1079,4695,5398
Genomic length:
5510
Exon/intron sizes in nt:
94,18,91,46,112
Flanking exon/introns:
chr7:115961887-115962583|chr7:115968093-115972029
Splice length:
541
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTTTTTAACATGTGGAACTAAACTTCTCTACCTTTGGACTTCATCACATACAAATTCTATTCCTGGAGCAATCCCCAAAAAAAGCTATGTCATGGAAAGAATTGTGCTACAGGTTGATTTTCCTTCTCCTGCGTTTGACATTATTTATACATCTCCTCAAATTGATAGAAACATTATACAGCAAGACAAGTTGGAAACACTGGAGAGTGATATAAAGGGGAAACTTCTGGATATTATTCACAGAGATTCATCATTTGGACTTTCTAAAGAAGATAAGGTCTTTTTGTGGGAAAACCGCTATTATTGCCTAAAACATCCAAATTGTCTTCCGAAGATATTAGCAAGTGCTCCAAACTGGAAGTGGGCTAATCTTGCCAAAACTTACTCATTGCTGCATCAGTGGCCGCCATTGTGCCCACTAGCTGCATTGGAGCTCCTTGATGCAAAATTTGCTGATCAGGAGGTGCGATCGCTTGCTGTGAGCTGGATGGAGGCCATTAGTGATGATGAGCTAGCAGATCTGCTCCCACAGTTCGTACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TTGCTGTGAGCTGGATGGAG
60.04
TGGGGATTGCTCCAGGAATAG
59.22
145
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTTGCTGTGAGCTGGATGGA
60.04
TGGGGATTGCTCCAGGAATAG
59.22
146
PCR template sequence:
TGCAAAATTTGCTGATCAGGAGGTGCGATCGCTTGCTGTGAGCTGGATGGAGGCCATTAGTGATGATGAGCTAGCAGATCTGCTCCCACAGTTCGTACAGGTTTTTAACATGTGGAACTAAACTTCTCTACCTTTGGACTTCATCACATACAAATTCTATTCCTGGAGCAATCCCCAAAAAAAGCTATGTCATGGAAAGA
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-199a-5p(1), mmu-miR-7b-5p(1), mmu-miR-31-5p(1), mmu-miR-7a-5p(1), mmu-miR-182-5p(1), mmu-miR-297a-5p(1), mmu-miR-188-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ACAGTTCGTACAGGTTTTTAACATGT
siRNA sets
TTAAAAACCTGTACGAACT,CATGTTAAAAACCTGTACG,TAAAAACCTGTACGAACTG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPIK3C2A_541_ORF_1
0.9938
0.009247122
0.504103506
471
ORF sequence:
ATGGAAAGAATTGTGCTACAGGTTGATTTTCCTTCTCCTGCGTTTGACATTATTTATACATCTCCTCAAATTGATAGAAACATTATACAGCAAGACAAGTTGGAAACACTGGAGAGTGATATAAAGGGGAAACTTCTGGATATTATTCACAGAGATTCATCATTTGGACTTTCTAAAGAAGATAAGGTCTTTTTGTGGGAAAACCGCTATTATTGCCTAAAACATCCAAATTGTCTTCCGAAGATATTAGCAAGTGCTCCAAACTGGAAGTGGGCTAATCTTGCCAAAACTTACTCATTGCTGCATCAGTGGCCGCCATTGTGCCCACTAGCTGCATTGGAGCTCCTTGATGCAAAATTTGCTGATCAGGAGGTGCGATCGCTTGCTGTGAGCTGGATGGAGGCCATTAGTGATGATGAGCTAGCAGATCTGCTCCCACAGTTCGTACAGGTTTTTAACATGTGGAACTAA
Peptide sequence:
MERIVLQVDFPSPAFDIIYTSPQIDRNIIQQDKLETLESDIKGKLLDIIHRDSSFGLSKEDKVFLWENRYYCLKHPNCLPKILASAPNWKWANLAKTYSLLHQWPPLCPLAALELLDAKFADQEVRSLAVSWMEAISDDELADLLPQFVQVFNMWN
IRESfinder result
IRESfinder score
0.696440331
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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