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mmu_circPip4k2a_339
Basic information of circular RNA
PanCircBase ID:
mmu_circPip4k2a_339
mm39_Chr. Position ID:
chr2|18870922|18894015|-
Gene name:
Pip4k2a
Transcript:
ENSMUST00000006912.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
6,5,4
Exon/intron offsets:
0,6172,22940
Genomic length:
23093
Exon/intron sizes in nt:
3,91,47,153
Flanking exon/introns:
chr2:18857737-18870922|chr2:18894015-18911039
Splice length:
339
Other database IDs:
circAtlas: mmu-Pip4k2a_0003
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_1242
Human Ortholog IDs:
Mature spliced Sequence:
AATTCCTTGACCAGAAGTGCACCCCTTCCCAATGACTCCCAGGCTCGCAGCGGGGCTCGGTTTCACACGTCTTATGATAAAAGATACGTCATCAAGACCATTACCAGTGAGGACGTGGCAGAGATGCACAACATCCTGAAGAAGTACCACCAGTATATAGTGGAATGTCATGGGGTCACACTTCTTCCTCAGTTCTTGGGAATGTACCGGCTTAATGTCGATGGAGTGGAAATATATGTGATTGTTACAAGGAATGTGTTCAGCCACCGGCTATCTGTATATAGGAAATACGACTTAAAGGGCTCGACAGTGGCTAGAGAAGCTAGTGATAAAGAAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGGAATGTGTTCAGCCACCG
60.61
AAGACGTGTGAAACCGAGCC
60.88
163
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGGAATGTGTTCAGCCACCG
60.61
AGACGTGTGAAACCGAGCC
60.3
162
PCR template sequence:
GATTGTTACAAGGAATGTGTTCAGCCACCGGCTATCTGTATATAGGAAATACGACTTAAAGGGCTCGACAGTGGCTAGAGAAGCTAGTGATAAAGAAAAGAATTCCTTGACCAGAAGTGCACCCCTTCCCAATGACTCCCAGGCTCGCAGCGGGGCTCGGTTTCACACGTCTTATGATAAAAGATACGTCATCAAGACCA
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-122-5p(1), mmu-miR-342-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TGATAAAGAAAAGAATTCCTTGACCA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPIP4K2A_339_ORF_1
1.0622
0.206529299
0.827187096
555
ORF sequence:
ATGCACAACATCCTGAAGAAGTACCACCAGTATATAGTGGAATGTCATGGGGTCACACTTCTTCCTCAGTTCTTGGGAATGTACCGGCTTAATGTCGATGGAGTGGAAATATATGTGATTGTTACAAGGAATGTGTTCAGCCACCGGCTATCTGTATATAGGAAATACGACTTAAAGGGCTCGACAGTGGCTAGAGAAGCTAGTGATAAAGAAAAGAATTCCTTGACCAGAAGTGCACCCCTTCCCAATGACTCCCAGGCTCGCAGCGGGGCTCGGTTTCACACGTCTTATGATAAAAGATACGTCATCAAGACCATTACCAGTGAGGACGTGGCAGAGATGCACAACATCCTGAAGAAGTACCACCAGTATATAGTGGAATGTCATGGGGTCACACTTCTTCCTCAGTTCTTGGGAATGTACCGGCTTAATGTCGATGGAGTGGAAATATATGTGATTGTTACAAGGAATGTGTTCAGCCACCGGCTATCTGTATATAGGAAATACGACTTAAAGGGCTCGACAGTGGCTAGAGAAGCTAGTGATAAAGAAAAG
Peptide sequence:
MHNILKKYHQYIVECHGVTLLPQFLGMYRLNVDGVEIYVIVTRNVFSHRLSVYRKYDLKGSTVAREASDKEKNSLTRSAPLPNDSQARSGARFHTSYDKRYVIKTITSEDVAEMHNILKKYHQYIVECHGVTLLPQFLGMYRLNVDGVEIYVIVTRNVFSHRLSVYRKYDLKGSTVAREASDKEK
IRESfinder result
IRESfinder score
0.484128937
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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