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mmu_circArhgef10_581
Basic information of circular RNA
PanCircBase ID:
mmu_circArhgef10_581
mm39_Chr. Position ID:
chr8|14990208|15004512|+
Gene name:
Arhgef10
Transcript:
ENSMUST00000084207.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
8,9,10,11,12
Exon/intron offsets:
0,2401,5071,6948,14226
Genomic length:
14304
Exon/intron sizes in nt:
164,117,115,107,78
Flanking exon/introns:
chr8:14986797-14990208|chr8:15004512-15004748
Splice length:
581
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
ATGAAATGATTTATGATGATGTGGAGAACGGCGAAGAAGGTGGAAACAGCTCCCCAGAGTACGGGTGGAGTTCCAGCGAATTCGAAAGCTATGAGGAGCCAAGCGACTCGGAGGGCAAGAACGGAATTCCCAGGTCCTTCCTGCGCAGCAGTCATAAAAAGCAACTCTCTCATGACCTAACCCGCTTTAAGGCGCACTGTGAGGAAAAGATGAGAGGCTTGGTGGCCAGTACGGTGGGAGCCATGGAGATTCAGCAGGCAAAGCAGAGGCAGGAGCGGAAGATGCAGAAGCTTATGAAGGCAGCCAAGGAGGGCACCAAAGATGGGCTGGAGAAAACCAAAGCTGCTGTGAAGAGAGGCGGCTCCTTCATCAGGACCAGGTCCTTGGTCTCTCAAGATCACAGGTGTTATTTTGAAGAAGAGCAGAATTTGTTCATTGACGTGGACTGCAAGCACCCGGAGGCTGTCCTCACCCCAATGCCCGAGGGCTTGTCTCAGCAGCAGGTTGTGAGAAGATACATTCTGGGCTCCATTGTTGAGAGCGAGAAGAACTATGTAGATGCTCTCCGGAGGATTTTGGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTCAGCAGCAGGTTGTGAGA
59.97
TGGAACTCCACCCGTACTCT
59.89
164
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCTCAGCAGCAGGTTGTGAG
59.97
TGGAACTCCACCCGTACTCT
59.89
165
PCR template sequence:
CGAGGGCTTGTCTCAGCAGCAGGTTGTGAGAAGATACATTCTGGGCTCCATTGTTGAGAGCGAGAAGAACTATGTAGATGCTCTCCGGAGGATTTTGGAGATGAAATGATTTATGATGATGTGGAGAACGGCGAAGAAGGTGGAAACAGCTCCCCAGAGTACGGGTGGAGTTCCAGCGAATTCGAAAGCTATGAGGAGCC
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-9-5p(1), mmu-miR-125b-1-3p(1), mmu-miR-1904(1), mmu-miR-193b-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GAGGATTTTGGAGATGAAATGATTTA
siRNA sets
TAAATCATTTCATCTCCAA, TTTCATCTCCAAAATCCTC, AAATCATTTCATCTCCAAA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCARHGEF10_581_ORF_1
1.0577
0.360438223
0.916206943
585
ORF sequence:
ATGATTTATGATGATGTGGAGAACGGCGAAGAAGGTGGAAACAGCTCCCCAGAGTACGGGTGGAGTTCCAGCGAATTCGAAAGCTATGAGGAGCCAAGCGACTCGGAGGGCAAGAACGGAATTCCCAGGTCCTTCCTGCGCAGCAGTCATAAAAAGCAACTCTCTCATGACCTAACCCGCTTTAAGGCGCACTGTGAGGAAAAGATGAGAGGCTTGGTGGCCAGTACGGTGGGAGCCATGGAGATTCAGCAGGCAAAGCAGAGGCAGGAGCGGAAGATGCAGAAGCTTATGAAGGCAGCCAAGGAGGGCACCAAAGATGGGCTGGAGAAAACCAAAGCTGCTGTGAAGAGAGGCGGCTCCTTCATCAGGACCAGGTCCTTGGTCTCTCAAGATCACAGGTGTTATTTTGAAGAAGAGCAGAATTTGTTCATTGACGTGGACTGCAAGCACCCGGAGGCTGTCCTCACCCCAATGCCCGAGGGCTTGTCTCAGCAGCAGGTTGTGAGAAGATACATTCTGGGCTCCATTGTTGAGAGCGAGAAGAACTATGTAGATGCTCTCCGGAGGATTTTGGAGATGAAATGA
Peptide sequence:
MIYDDVENGEEGGNSSPEYGWSSSEFESYEEPSDSEGKNGIPRSFLRSSHKKQLSHDLTRFKAHCEEKMRGLVASTVGAMEIQQAKQRQERKMQKLMKAAKEGTKDGLEKTKAAVKRGGSFIRTRSLVSQDHRCYFEEEQNLFIDVDCKHPEAVLTPMPEGLSQQQVVRRYILGSIVESEKNYVDALRRILEMK
IRESfinder result
IRESfinder score
0.272658926
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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