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mmu_circArhgef16_320
Basic information of circular RNA
PanCircBase ID:
mmu_circArhgef16_320
mm39_Chr. Position ID:
chr4|154365774|154366537|-
Gene name:
Arhgef16
Transcript:
ENSMUST00000030898.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
11,10,9
Exon/intron offsets:
0,506,688
Genomic length:
763
Exon/intron sizes in nt:
152,93,75
Flanking exon/introns:
chr4:154365476-154365774|chr4:154366537-154366972
Splice length:
320
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
ACACTCTGCCTGAAGACGCAAGGCCATCCCGAACGGTATAAAGCTGCCAGCCAAGCCCTGAAGGCCATCAGCAAGCTGGTGAAGCAGTGTAACGAGGGAGCTCACAAGATGGAGCGCACAGAGCAGATATACACACTGAACATGCAGCTGGACTTCGGCAAGGTCAAGTCCCTCCCGCTCATCTCCGCCTCTCGCTGGCTGCTGAAGCGTGGGGAGCTCTTCCTCTTGGAGGAATCCAGTATCTTTAGGAAAATCGCCAGCCGACCCACGTGTTATCTGTTCCTGTTCAATGATGTCCTGGTTGTCACCAAGAAGAAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCGACCCACGTGTTATCTGT
59.75
GCTTCACCAGCTTGCTGATG
59.83
145
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTTTAGGAAAATCGCCAGCCG
59.94
GCTTCACCAGCTTGCTGATG
59.83
163
PCR template sequence:
TCCTCTTGGAGGAATCCAGTATCTTTAGGAAAATCGCCAGCCGACCCACGTGTTATCTGTTCCTGTTCAATGATGTCCTGGTTGTCACCAAGAAGAAAAGACACTCTGCCTGAAGACGCAAGGCCATCCCGAACGGTATAAAGCTGCCAGCCAAGCCCTGAAGGCCATCAGCAAGCTGGTGAAGCAGTGTAACGAGGGAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
NA
Interacting miRNAs (#binding sites)
NA
siRNAs for circular RNA silencing
Junction sequence
CCAAGAAGAAAAGACACTCTGCCTGA
siRNA sets
GAGTGTCTTTTCTTCTTGG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCARHGEF16_320_ORF_1
1.3265
0.371913433
0.587350274
225
ORF sequence:
ATGGAGCGCACAGAGCAGATATACACACTGAACATGCAGCTGGACTTCGGCAAGGTCAAGTCCCTCCCGCTCATCTCCGCCTCTCGCTGGCTGCTGAAGCGTGGGGAGCTCTTCCTCTTGGAGGAATCCAGTATCTTTAGGAAAATCGCCAGCCGACCCACGTGTTATCTGTTCCTGTTCAATGATGTCCTGGTTGTCACCAAGAAGAAAAGACACTCTGCCTGA
Peptide sequence:
MERTEQIYTLNMQLDFGKVKSLPLISASRWLLKRGELFLLEESSIFRKIASRPTCYLFLFNDVLVVTKKKRHSA
IRESfinder result
IRESfinder score
0.255767413
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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