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mmu_circSos1_268
Basic information of circular RNA
PanCircBase ID:
mmu_circSos1_268
mm39_Chr. Position ID:
chr17|80714119|80714387|-
Gene name:
Sos1
Transcript:
ENSMUST00000068714.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
1
Exon/intron indexes:
20
Exon/intron offsets:
0
Genomic length:
268
Exon/intron sizes in nt:
268
Flanking exon/introns:
chr17:80707288-80714119|chr17:80714387-80715674
Splice length:
268
Other database IDs:
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
CCAAAAAAATACAGCTATCCCCTAAAATCTCCTGGTGTTCGTCCATCAAATCCAAGACCAGGAACCATGAGACATCCCACACCTCTGCAGCAGGAGCCAAGAAAAATTAGCTACAGTCGGATTCCTGAAAGTGAGACGGAAAGCACAGCATCTGCACCAAACTCCCCTCGGACCCCACTGACGCCGCCCCCTGCATCTGGCACCTCCAGCAACACAGATGTTTGCAGCGTGTTCGATTCTGACCACTCGGCAAGCCCTTTTCATTCAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GATGTTTGCAGCGTGTTCGA
59.77
GCAGAGGTGTGGGATGTCTC
60.11
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGATGTTTGCAGCGTGTTCG
59.76
GCAGAGGTGTGGGATGTCTC
60.11
141
PCR template sequence:
CGGACCCCACTGACGCCGCCCCCTGCATCTGGCACCTCCAGCAACACAGATGTTTGCAGCGTGTTCGATTCTGACCACTCGGCAAGCCCTTTTCATTCAACCAAAAAAATACAGCTATCCCCTAAAATCTCCTGGTGTTCGTCCATCAAATCCAAGACCAGGAACCATGAGACATCCCACACCTCTGCAGCAGGAGCCAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-298-5p(1), mmu-miR-370-3p(1), mmu-miR-540-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CCTTTTCATTCAACCAAAAAAATACA
siRNA sets
TATTTTTTTGGTTGAATGA, TTTTTTGGTTGAATGAAAA, TTTTGGTTGAATGAAAAGG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSOS1_268_ORF_1
0.7892
0.098965936
0.251879685
318
ORF sequence:
ATGTTTGCAGCGTGTTCGATTCTGACCACTCGGCAAGCCCTTTTCATTCAACCAAAAAAATACAGCTATCCCCTAAAATCTCCTGGTGTTCGTCCATCAAATCCAAGACCAGGAACCATGAGACATCCCACACCTCTGCAGCAGGAGCCAAGAAAAATTAGCTACAGTCGGATTCCTGAAAGTGAGACGGAAAGCACAGCATCTGCACCAAACTCCCCTCGGACCCCACTGACGCCGCCCCCTGCATCTGGCACCTCCAGCAACACAGATGTTTGCAGCGTGTTCGATTCTGACCACTCGGCAAGCCCTTTTCATTCA
Peptide sequence:
MFAACSILTTRQALFIQPKKYSYPLKSPGVRPSNPRPGTMRHPTPLQQEPRKISYSRIPESETESTASAPNSPRTPLTPPPASGTSSNTDVCSVFDSDHSASPFHS
IRESfinder result
IRESfinder score
0.538804134
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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