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mmu_circSlc15a4_514
Basic information of circular RNA
PanCircBase ID:
mmu_circSlc15a4_514
mm39_Chr. Position ID:
chr5|127678921|127681712|-
Gene name:
Slc15a4
Transcript:
ENSMUST00000153832.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
6,5,4,3
Exon/intron offsets:
0,1835,2253,2680
Genomic length:
2791
Exon/intron sizes in nt:
15,61,69,78,111
Flanking exon/introns:
chr5:127677642-127678921|chr5:127681712-127685835
Splice length:
514
Other database IDs:
circAtlas: mmu-Slc15a4_0006
Human Ortholog IDs:
Mature spliced Sequence:
ATGTCGCGTGGAGGGCCGTTCACAGAGGACAAAGTGGAAGACGTGAAAGCCCTGGTCAAGATTGTGCCCGTGTTCTTGGCTCTGATTCCTTACTGGACAGTGTATTTCCAAATGCAGACCACATATGCTTTACAGAGTCTTCATTTGAAGATTCCAGAAATCTCAAGTATCACCACCACCCATCACACGCTGCCTGCAGCTTGGCTCACCATGTTTGATGCGGTGCTCATCCTCCTGCTCATCCCACTGAAGGACAAGCTGGTGGACCCGGTGCTGAGGAGACATGGCCTGCTCCCATCCTCCCTGAAGAGGATTGCTGTGGGGATGTTCTTCGTCATGTGCTCTGCCTTTGCTGCAGGAATCCTGGAGAGTAAAAGGCTGGACCTGGTAAAGGAGAAGACCATTAACCAGACCATTGGTGGTGTGGTGTACCATGCTGCTGACTTGCCCATCTGGTGGCAGATCCCACAGTATGTGCTCATTGGCATCAGTGAGATATTTGCAAGTATAGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGTGTACCATGCTGCTGACT
60.04
ATCAGAGCCAAGAACACGGG
60.04
175
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGTGTACCATGCTGCTGACT
60.04
CCAAGAACACGGGCACAATC
59.76
168
PCR template sequence:
ATTGGTGGTGTGGTGTACCATGCTGCTGACTTGCCCATCTGGTGGCAGATCCCACAGTATGTGCTCATTGGCATCAGTGAGATATTTGCAAGTATAGCAGATGTCGCGTGGAGGGCCGTTCACAGAGGACAAAGTGGAAGACGTGAAAGCCCTGGTCAAGATTGTGCCCGTGTTCTTGGCTCTGATTCCTTACTGGACAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-200a-3p(1), mmu-miR-141-3p(1), mmu-miR-103-3p(1), mmu-miR-107-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GCAAGTATAGCAGATGTCGCGTGGAG
siRNA sets
CGACATCTGCTATACTTGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSLC15A4_514_ORF_1
1.078
0.200090063
0.944694601
732
ORF sequence:
ATGTCGCGTGGAGGGCCGTTCACAGAGGACAAAGTGGAAGACGTGAAAGCCCTGGTCAAGATTGTGCCCGTGTTCTTGGCTCTGATTCCTTACTGGACAGTGTATTTCCAAATGCAGACCACATATGCTTTACAGAGTCTTCATTTGAAGATTCCAGAAATCTCAAGTATCACCACCACCCATCACACGCTGCCTGCAGCTTGGCTCACCATGTTTGATGCGGTGCTCATCCTCCTGCTCATCCCACTGAAGGACAAGCTGGTGGACCCGGTGCTGAGGAGACATGGCCTGCTCCCATCCTCCCTGAAGAGGATTGCTGTGGGGATGTTCTTCGTCATGTGCTCTGCCTTTGCTGCAGGAATCCTGGAGAGTAAAAGGCTGGACCTGGTAAAGGAGAAGACCATTAACCAGACCATTGGTGGTGTGGTGTACCATGCTGCTGACTTGCCCATCTGGTGGCAGATCCCACAGTATGTGCTCATTGGCATCAGTGAGATATTTGCAAGTATAGCAGATGTCGCGTGGAGGGCCGTTCACAGAGGACAAAGTGGAAGACGTGAAAGCCCTGGTCAAGATTGTGCCCGTGTTCTTGGCTCTGATTCCTTACTGGACAGTGTATTTCCAAATGCAGACCACATATGCTTTACAGAGTCTTCATTTGAAGATTCCAGAAATCTCAAGTATCACCACCACCCATCACACGCTGCCTGCAGCTTGGCTCACCATGTTTGA
Peptide sequence:
MSRGGPFTEDKVEDVKALVKIVPVFLALIPYWTVYFQMQTTYALQSLHLKIPEISSITTTHHTLPAAWLTMFDAVLILLLIPLKDKLVDPVLRRHGLLPSSLKRIAVGMFFVMCSAFAAGILESKRLDLVKEKTINQTIGGVVYHAADLPIWWQIPQYVLIGISEIFASIADVAWRAVHRGQSGRRESPGQDCARVLGSDSLLDSVFPNADHICFTESSFEDSRNLKYHHHPSHAACSLAHHV
IRESfinder result
IRESfinder score
0.606471249
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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