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mmu_circAkap13_374
Basic information of circular RNA
PanCircBase ID:
mmu_circAkap13_374
mm39_Chr. Position ID:
chr7|75326853|75327227|+
Gene name:
Akap13
Transcript:
ENSMUST00000166315.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
1
Exon/intron indexes:
11
Exon/intron offsets:
0
Genomic length:
374
Exon/intron sizes in nt:
374
Flanking exon/introns:
chr7:75316396-75326853|chr7:75327227-75329567
Splice length:
374
Other database IDs:
CIRCpedia: MMU_CIRCpedia_39443, circAtlas: mmu-Akap13_0011
circBase: hsa_circ_0008017, circAtlas: hsa-AKAP13_0016, CIRCpedia: HSA_CIRCpedia_15984
Human Ortholog IDs:
Mature spliced Sequence:
CCTGAAGAAGAGCAGTTACTTTGTGATACAACAGGATCCAGTTCTTCCACAGATGACACAGCTTCCCTGGATCGACATTCTTCTCATGGCAGTGACGTGTCCCTTCCTCAGACTTCAAAGTTAAACAGATCCAGAAATCATCAAAGTGCCAATGGCTTTTTCAGCCCTGGAGTCGAGGCACCTGAGAGTCGAGAGAGTGAGAGTGAGCCTGCTGGCTCTGGTGAAATGGAAGAGGAGGAGATGGACAGCATCACTGAAGTGCCTGCCAACTGCTCTTTTCTGAGGAGCTCCATGCGTTCTCTTTCTCCTTTCCGGAGGCACAGCTGGGGACCTGGGAAGAACGCAGCCAGTGATGCAGAAATGAACCAGCGGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGAAGAACGCAGCCAGTGAT
60.67
ACACGTCACTGCCATGAGAA
59.61
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGAAGAACGCAGCCAGTGA
60.3
ACACGTCACTGCCATGAGAA
59.61
140
PCR template sequence:
CTTTTCTGAGGAGCTCCATGCGTTCTCTTTCTCCTTTCCGGAGGCACAGCTGGGGACCTGGGAAGAACGCAGCCAGTGATGCAGAAATGAACCAGCGGAGCCTGAAGAAGAGCAGTTACTTTGTGATACAACAGGATCCAGTTCTTCCACAGATGACACAGCTTCCCTGGATCGACATTCTTCTCATGGCAGTGACGTGT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-434-5p(2), mmu-miR-7b-5p(1), mmu-miR-214-3p(1), mmu-miR-96-5p(1), mmu-miR-484(1), mmu-miR-350-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TGAACCAGCGGAGCCTGAAGAAGAGC
siRNA sets
GCTCTTCTTCAGGCTCCGC,CTCTTCTTCAGGCTCCGCT,TCTTCTTCAGGCTCCGCTG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCAKAP13_374_ORF_1
1.0124
0.181391419
0.339345867
273
ORF sequence:
ATGGAAGAGGAGGAGATGGACAGCATCACTGAAGTGCCTGCCAACTGCTCTTTTCTGAGGAGCTCCATGCGTTCTCTTTCTCCTTTCCGGAGGCACAGCTGGGGACCTGGGAAGAACGCAGCCAGTGATGCAGAAATGAACCAGCGGAGCCTGAAGAAGAGCAGTTACTTTGTGATACAACAGGATCCAGTTCTTCCACAGATGACACAGCTTCCCTGGATCGACATTCTTCTCATGGCAGTGACGTGTCCCTTCCTCAGACTTCAAAGTTAA
Peptide sequence:
MEEEEMDSITEVPANCSFLRSSMRSLSPFRRHSWGPGKNAASDAEMNQRSLKKSSYFVIQQDPVLPQMTQLPWIDILLMAVTCPFLRLQS
IRESfinder result
IRESfinder score
0.537441595
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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