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mmu_circArhgef12_435
Basic information of circular RNA
PanCircBase ID:
mmu_circArhgef12_435
mm39_Chr. Position ID:
chr9|42929347|42934168|-
Gene name:
Arhgef12
Transcript:
ENSMUST00000165665.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
10,9,8,7
Exon/intron offsets:
0,283,2553,4763
Genomic length:
4821
Exon/intron sizes in nt:
120,78,179,58
Flanking exon/introns:
chr9:42927339-42929347|chr9:42934168-42937475
Splice length:
435
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTGAATGGTACTCTGGTGACTCATTCAAATCATCTGGAGGTGGTGAAACTAATCAGATCTGGTTCCTATGTAGCTCTCACTGTCCAGGGACGCCCACCTGGGTCGCCCCAGATCCCACTTGCTGATTCTGAAGTAGAGCCATCAGTCACTGGACATATGTCTCCCATTATGACATCCCCTCATTCCCCTGGAGCAGCCGGGAATATGGAGAGAATCACCAGTCCTGTGCTCGTGGGGGAGGAAAACAATGTGGTCCATAACCAGAAAGTAGAGATTCTGAGAAAGATGTTACAGAAGGAACAGGAACGGCTGCAGTTGCTGCAGGAAGATTACAACCGAACGGCTACCCAAAGATTGCTCAAGGAGATCCAGGAGGCCAAGAAGCACATCCCGCAGCTGCAGGAGCAGCTGTCCAAAGCCACGGGCTCTGCTCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGGAGGCCAAGAAGCACATC
60.03
TCCCTGGACAGTGAGAGCTA
59.3
155
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGGAGGCCAAGAAGCACATC
60.03
CCCTGGACAGTGAGAGCTAC
59.18
154
PCR template sequence:
CCGAACGGCTACCCAAAGATTGCTCAAGGAGATCCAGGAGGCCAAGAAGCACATCCCGCAGCTGCAGGAGCAGCTGTCCAAAGCCACGGGCTCTGCTCAGGTGAATGGTACTCTGGTGACTCATTCAAATCATCTGGAGGTGGTGAAACTAATCAGATCTGGTTCCTATGTAGCTCTCACTGTCCAGGGACGCCCACCTG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
1
Interacting miRNAs (#binding sites)
mmu-miR-222-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GGGCTCTGCTCAGGTGAATGGTACTC
siRNA sets
ATTCACCTGAGCAGAGCCC, TACCATTCACCTGAGCAGA, AGTACCATTCACCTGAGCA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCARHGEF12_435_ORF_1
1.2538
0.357887119
0.975490623
714
ORF sequence:
ATGTCTCCCATTATGACATCCCCTCATTCCCCTGGAGCAGCCGGGAATATGGAGAGAATCACCAGTCCTGTGCTCGTGGGGGAGGAAAACAATGTGGTCCATAACCAGAAAGTAGAGATTCTGAGAAAGATGTTACAGAAGGAACAGGAACGGCTGCAGTTGCTGCAGGAAGATTACAACCGAACGGCTACCCAAAGATTGCTCAAGGAGATCCAGGAGGCCAAGAAGCACATCCCGCAGCTGCAGGAGCAGCTGTCCAAAGCCACGGGCTCTGCTCAGGTGAATGGTACTCTGGTGACTCATTCAAATCATCTGGAGGTGGTGAAACTAATCAGATCTGGTTCCTATGTAGCTCTCACTGTCCAGGGACGCCCACCTGGGTCGCCCCAGATCCCACTTGCTGATTCTGAAGTAGAGCCATCAGTCACTGGACATATGTCTCCCATTATGACATCCCCTCATTCCCCTGGAGCAGCCGGGAATATGGAGAGAATCACCAGTCCTGTGCTCGTGGGGGAGGAAAACAATGTGGTCCATAACCAGAAAGTAGAGATTCTGAGAAAGATGTTACAGAAGGAACAGGAACGGCTGCAGTTGCTGCAGGAAGATTACAACCGAACGGCTACCCAAAGATTGCTCAAGGAGATCCAGGAGGCCAAGAAGCACATCCCGCAGCTGCAGGAGCAGCTGTCCAAAGCCACGGGCTCTGCTCAG
Peptide sequence:
MSPIMTSPHSPGAAGNMERITSPVLVGEENNVVHNQKVEILRKMLQKEQERLQLLQEDYNRTATQRLLKEIQEAKKHIPQLQEQLSKATGSAQVNGTLVTHSNHLEVVKLIRSGSYVALTVQGRPPGSPQIPLADSEVEPSVTGHMSPIMTSPHSPGAAGNMERITSPVLVGEENNVVHNQKVEILRKMLQKEQERLQLLQEDYNRTATQRLLKEIQEAKKHIPQLQEQLSKATGSAQ
IRESfinder result
IRESfinder score
0.484564471
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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