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mmu_circPip5k1a_271
Basic information of circular RNA
PanCircBase ID:
mmu_circPip5k1a_271
mm39_Chr. Position ID:
chr3|94979200|94979831|-
Gene name:
Pip5k1a
Transcript:
ENSMUST00000107236.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
6,5
Exon/intron offsets:
0,513
Genomic length:
631
Exon/intron sizes in nt:
153,118
Flanking exon/introns:
chr3:94978322-94979200|chr3:94979831-94981303
Splice length:
271
Other database IDs:
circBase: mmu_circ_0010942, CIRCpedia: MMU_CIRCpedia_35020, circAtlas: mmu-Pip5k1a_0009
circAtlas: hsa-PIP5K1A_0029, CIRCpedia: HSA_CIRCpedia_27931
Human Ortholog IDs:
Mature spliced Sequence:
TGAAGGCAGCAACCTGACACCGGCTCACCATTACAATGACTTTCGATTCAAGACCTATGCGCCTGTTGCCTTCCGTTACTTCAGAGAGCTCTTTGGCATCCGGCCTGATGATTACTTGTACTCCCTTTGCAGTGAGCCATTGATTGAACTCTCCAATTCTGGAGCTAGTGGTTCCCTCTTCTATGTGTCCAGTGATGATGAATTCATCATTAAGACCGTCCAGCATAAAGAAGCAGAATTTCTGCAGAAGTTGCTTCCAGGATACTACATG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACCGTCCAGCATAAAGAAGCA
60
TGCCAAAGAGCTCTCTGAAGT
59.3
155
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCATCATTAAGACCGTCCAGCA
59.5
AGTAACGGAAGGCAACAGGC
60.61
148
PCR template sequence:
TTCCCTCTTCTATGTGTCCAGTGATGATGAATTCATCATTAAGACCGTCCAGCATAAAGAAGCAGAATTTCTGCAGAAGTTGCTTCCAGGATACTACATGTGAAGGCAGCAACCTGACACCGGCTCACCATTACAATGACTTTCGATTCAAGACCTATGCGCCTGTTGCCTTCCGTTACTTCAGAGAGCTCTTTGGCATC
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-191-5p(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
AGGATACTACATGTGAAGGCAGCAAC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPIP5K1A_271_ORF_1
0.6392
0.225432301
0.366428923
360
ORF sequence:
ATGTGTCCAGTGATGATGAATTCATCATTAAGACCGTCCAGCATAAAGAAGCAGAATTTCTGCAGAAGTTGCTTCCAGGATACTACATGTGAAGGCAGCAACCTGACACCGGCTCACCATTACAATGACTTTCGATTCAAGACCTATGCGCCTGTTGCCTTCCGTTACTTCAGAGAGCTCTTTGGCATCCGGCCTGATGATTACTTGTACTCCCTTTGCAGTGAGCCATTGATTGAACTCTCCAATTCTGGAGCTAGTGGTTCCCTCTTCTATGTGTCCAGTGATGATGAATTCATCATTAAGACCGTCCAGCATAAAGAAGCAGAATTTCTGCAGAAGTTGCTTCCAGGATACTACATG
Peptide sequence:
MCPVMMNSSLRPSSIKKQNFCRSCFQDTTCEGSNLTPAHHYNDFRFKTYAPVAFRYFRELFGIRPDDYLYSLCSEPLIELSNSGASGSLFYVSSDDEFIIKTVQHKEAEFLQKLLPGYYM
IRESfinder result
IRESfinder score
0.732190156
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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