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mmu_circInpp4a_584
Basic information of circular RNA
PanCircBase ID:
mmu_circInpp4a_584
mm39_Chr. Position ID:
chr1|37406837|37411500|+
Gene name:
Inpp4a
Transcript:
ENSMUST00000027287.11
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
9,10,11,12,13
Exon/intron offsets:
0,520,1601,3945,4554
Genomic length:
4663
Exon/intron sizes in nt:
9,11,48,13,11,05,109
Flanking exon/introns:
chr1:37406062-37406837|chr1:37411500-37413352
Splice length:
584
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
ATGGTTCTGCCCGTTGATGAAAGCTTGACTGAGGCCTTGGGAATCCGATCCAAATATGCTTCTTTGCGAAAAGACAGCTTACTGAAAGCAGTGTTTGGTGGTGCCATCTGCCGCATGTACCGCTTCCCAACTACTGATGGTAACCACCTACGGATCCTGGAGCAGATGGCAGAGAGCGTCCTCTCCCTGCACGTGCCTCGGCAGTTTGTGAAGCTACTGCTGGAAGAAGATGCAGCCAGGGTATGTGAGTTGGAAGAGTTGGGGGAGCTGTCCCCTTGCTGGGAGAGCCTCCGGCGCCAGATTGTCACCCAGTATCAGACTATCATCCTCACCTACCAGGAGAATCTGACTGACCTCCATCAGTACAAAGGTCCTTCCTTTAAAGCAAGCAGTTTGAAAGCAGATAAAAAGTTAGAATTTGTTCCCACAAACCTGCACATACAACGGATGCGAGTTCAAGATGATGGAGGCTCAGATCAGAACTACGATGTCGTCACTATTGGAGCCCCAGCAGCACACTGCCAAGGTTTTAAGTCAGGAGGTCTTCGAAAAAAGCTGCACAAGTTTGAAGAGGCCAAGAAACA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CGTCACTATTGGAGCCCCAG
60.18
TTGGATCGGATTCCCAAGGC
60.11
146
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GTCGTCACTATTGGAGCCCC
60.18
TTGGATCGGATTCCCAAGGC
60.11
148
PCR template sequence:
ACGATGTCGTCACTATTGGAGCCCCAGCAGCACACTGCCAAGGTTTTAAGTCAGGAGGTCTTCGAAAAAAGCTGCACAAGTTTGAAGAGGCCAAGAAACAATGGTTCTGCCCGTTGATGAAAGCTTGACTGAGGCCTTGGGAATCCGATCCAAATATGCTTCTTTGCGAAAAGACAGCTTACTGAAAGCAGTGTTTGGTG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
11
Interacting miRNAs (#binding sites)
mmu-miR-200a-3p(1), mmu-miR-141-3p(1), mmu-miR-34c-5p(1), mmu-miR-34a-5p(1), mmu-miR-199b-3p(1), mmu-miR-199a-3p(1), mmu-miR-183-5p(1), mmu-miR-34b-5p(1), mmu-miR-297a-5p(1), mmu-miR-3087-3p(1), mmu-miR-350-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AGGCCAAGAAACAATGGTTCTGCCCG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCINPP4A_584_ORF_1
1.0293
0.303488613
0.908954643
612
ORF sequence:
ATGGTTCTGCCCGTTGATGAAAGCTTGACTGAGGCCTTGGGAATCCGATCCAAATATGCTTCTTTGCGAAAAGACAGCTTACTGAAAGCAGTGTTTGGTGGTGCCATCTGCCGCATGTACCGCTTCCCAACTACTGATGGTAACCACCTACGGATCCTGGAGCAGATGGCAGAGAGCGTCCTCTCCCTGCACGTGCCTCGGCAGTTTGTGAAGCTACTGCTGGAAGAAGATGCAGCCAGGGTATGTGAGTTGGAAGAGTTGGGGGAGCTGTCCCCTTGCTGGGAGAGCCTCCGGCGCCAGATTGTCACCCAGTATCAGACTATCATCCTCACCTACCAGGAGAATCTGACTGACCTCCATCAGTACAAAGGTCCTTCCTTTAAAGCAAGCAGTTTGAAAGCAGATAAAAAGTTAGAATTTGTTCCCACAAACCTGCACATACAACGGATGCGAGTTCAAGATGATGGAGGCTCAGATCAGAACTACGATGTCGTCACTATTGGAGCCCCAGCAGCACACTGCCAAGGTTTTAAGTCAGGAGGTCTTCGAAAAAAGCTGCACAAGTTTGAAGAGGCCAAGAAACAATGGTTCTGCCCGTTGATGAAAGCTTGA
Peptide sequence:
MVLPVDESLTEALGIRSKYASLRKDSLLKAVFGGAICRMYRFPTTDGNHLRILEQMAESVLSLHVPRQFVKLLLEEDAARVCELEELGELSPCWESLRRQIVTQYQTIILTYQENLTDLHQYKGPSFKASSLKADKKLEFVPTNLHIQRMRVQDDGGSDQNYDVVTIGAPAAHCQGFKSGGLRKKLHKFEEAKKQWFCPLMKA
IRESfinder result
IRESfinder score
0.434484111
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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