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mmu_circArhgef12_957
Basic information of circular RNA
PanCircBase ID:
mmu_circArhgef12_957
mm39_Chr. Position ID:
chr9|42916839|42934168|-
Gene name:
Arhgef12
Transcript:
ENSMUST00000165665.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
9
Exon/intron indexes:
15,14,13,12,11,10,9,8,7
Exon/intron offsets:
0,292,2472,4635,10359,12508,12791,15061,17271
Genomic length:
17329
Exon/intron sizes in nt:
99,111,96,75,141,120,78,179,58
Flanking exon/introns:
chr9:42913196-42916839|chr9:42934168-42937475
Splice length:
957
Other database IDs:
circAtlas: mmu-Arhgef12_0021
circAtlas: hsa-ARHGEF12_0028, CIRCpedia: HSA_CIRCpedia_155662
Human Ortholog IDs:
Mature spliced Sequence:
GTGAATGGTACTCTGGTGACTCATTCAAATCATCTGGAGGTGGTGAAACTAATCAGATCTGGTTCCTATGTAGCTCTCACTGTCCAGGGACGCCCACCTGGGTCGCCCCAGATCCCACTTGCTGATTCTGAAGTAGAGCCATCAGTCACTGGACATATGTCTCCCATTATGACATCCCCTCATTCCCCTGGAGCAGCCGGGAATATGGAGAGAATCACCAGTCCTGTGCTCGTGGGGGAGGAAAACAATGTGGTCCATAACCAGAAAGTAGAGATTCTGAGAAAGATGTTACAGAAGGAACAGGAACGGCTGCAGTTGCTGCAGGAAGATTACAACCGAACGGCTACCCAAAGATTGCTCAAGGAGATCCAGGAGGCCAAGAAGCACATCCCGCAGCTGCAGGAGCAGCTGTCCAAAGCCACGGGCTCTGCTCAGGACGGAGCTGTAATTGCACCCTCCAGGCCATTAGGTGATGCCCTAACACTCAGTGAGGCAGAAGCAGATCCTGGAGATGGCCTGTGCAGGACTGACTGGAGCAGTGGAGATGCTTCTCGGCCCAGTAGTGACAGTGCTGATAGTCCCAAGAGTAGCCTGAGAGAAAGGAGTTACCTGGAGGAAGCCCCAGAGAGAAGTGAAGGAGTTCAGGACGCTCAGGAGCCGCAGTCGCTGGTCGGCAGTCCCTCCACCCGGGGCGCCCCTCACATCATTGGAGCAGAGGATGATGATTTTGGTACTGAGCATGAGCAGATCAATGGACAGTGCAGCTGTTTCCAGAGCATTGAATTGCTGAAGTCTCGCCCTGCTCACTTGGCTGTTTTCTTACACCATGTAGTCTCACAGTTTGACCCTGCAACATTGCTCTGTTATCTCTATTCAGACCTGTATAAGCAGACAAACTCCAAGGAGACTCGGCGTGTCTTCCTGGAGTTTCATCAGTTCTTCTTGGACCGGTCTGCA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AAACTCCAAGGAGACTCGGC
59.68
TCCCTGGACAGTGAGAGCTA
59.3
154
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AAACTCCAAGGAGACTCGGC
59.68
CCCTGGACAGTGAGAGCTAC
59.18
153
PCR template sequence:
GCTCTGTTATCTCTATTCAGACCTGTATAAGCAGACAAACTCCAAGGAGACTCGGCGTGTCTTCCTGGAGTTTCATCAGTTCTTCTTGGACCGGTCTGCAGTGAATGGTACTCTGGTGACTCATTCAAATCATCTGGAGGTGGTGAAACTAATCAGATCTGGTTCCTATGTAGCTCTCACTGTCCAGGGACGCCCACCTG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-676-3p(2), mmu-miR-7b-5p(1), mmu-miR-7a-5p(1), mmu-miR-222-3p(1), mmu-miR-326-3p(1), mmu-miR-3105-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GGACCGGTCTGCAGTGAATGGTACTC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCARHGEF12_957_ORF_1
1.0739
0.285823623
0.999974175
1758
ORF sequence:
ATGTCTCCCATTATGACATCCCCTCATTCCCCTGGAGCAGCCGGGAATATGGAGAGAATCACCAGTCCTGTGCTCGTGGGGGAGGAAAACAATGTGGTCCATAACCAGAAAGTAGAGATTCTGAGAAAGATGTTACAGAAGGAACAGGAACGGCTGCAGTTGCTGCAGGAAGATTACAACCGAACGGCTACCCAAAGATTGCTCAAGGAGATCCAGGAGGCCAAGAAGCACATCCCGCAGCTGCAGGAGCAGCTGTCCAAAGCCACGGGCTCTGCTCAGGACGGAGCTGTAATTGCACCCTCCAGGCCATTAGGTGATGCCCTAACACTCAGTGAGGCAGAAGCAGATCCTGGAGATGGCCTGTGCAGGACTGACTGGAGCAGTGGAGATGCTTCTCGGCCCAGTAGTGACAGTGCTGATAGTCCCAAGAGTAGCCTGAGAGAAAGGAGTTACCTGGAGGAAGCCCCAGAGAGAAGTGAAGGAGTTCAGGACGCTCAGGAGCCGCAGTCGCTGGTCGGCAGTCCCTCCACCCGGGGCGCCCCTCACATCATTGGAGCAGAGGATGATGATTTTGGTACTGAGCATGAGCAGATCAATGGACAGTGCAGCTGTTTCCAGAGCATTGAATTGCTGAAGTCTCGCCCTGCTCACTTGGCTGTTTTCTTACACCATGTAGTCTCACAGTTTGACCCTGCAACATTGCTCTGTTATCTCTATTCAGACCTGTATAAGCAGACAAACTCCAAGGAGACTCGGCGTGTCTTCCTGGAGTTTCATCAGTTCTTCTTGGACCGGTCTGCAGTGAATGGTACTCTGGTGACTCATTCAAATCATCTGGAGGTGGTGAAACTAATCAGATCTGGTTCCTATGTAGCTCTCACTGTCCAGGGACGCCCACCTGGGTCGCCCCAGATCCCACTTGCTGATTCTGAAGTAGAGCCATCAGTCACTGGACATATGTCTCCCATTATGACATCCCCTCATTCCCCTGGAGCAGCCGGGAATATGGAGAGAATCACCAGTCCTGTGCTCGTGGGGGAGGAAAACAATGTGGTCCATAACCAGAAAGTAGAGATTCTGAGAAAGATGTTACAGAAGGAACAGGAACGGCTGCAGTTGCTGCAGGAAGATTACAACCGAACGGCTACCCAAAGATTGCTCAAGGAGATCCAGGAGGCCAAGAAGCACATCCCGCAGCTGCAGGAGCAGCTGTCCAAAGCCACGGGCTCTGCTCAGGACGGAGCTGTAATTGCACCCTCCAGGCCATTAGGTGATGCCCTAACACTCAGTGAGGCAGAAGCAGATCCTGGAGATGGCCTGTGCAGGACTGACTGGAGCAGTGGAGATGCTTCTCGGCCCAGTAGTGACAGTGCTGATAGTCCCAAGAGTAGCCTGAGAGAAAGGAGTTACCTGGAGGAAGCCCCAGAGAGAAGTGAAGGAGTTCAGGACGCTCAGGAGCCGCAGTCGCTGGTCGGCAGTCCCTCCACCCGGGGCGCCCCTCACATCATTGGAGCAGAGGATGATGATTTTGGTACTGAGCATGAGCAGATCAATGGACAGTGCAGCTGTTTCCAGAGCATTGAATTGCTGAAGTCTCGCCCTGCTCACTTGGCTGTTTTCTTACACCATGTAGTCTCACAGTTTGACCCTGCAACATTGCTCTGTTATCTCTATTCAGACCTGTATAAGCAGACAAACTCCAAGGAGACTCGGCGTGTCTTCCTGGAGTTTCATCAGTTCTTCTTGGACCGGTCTGCA
Peptide sequence:
MSPIMTSPHSPGAAGNMERITSPVLVGEENNVVHNQKVEILRKMLQKEQERLQLLQEDYNRTATQRLLKEIQEAKKHIPQLQEQLSKATGSAQDGAVIAPSRPLGDALTLSEAEADPGDGLCRTDWSSGDASRPSSDSADSPKSSLRERSYLEEAPERSEGVQDAQEPQSLVGSPSTRGAPHIIGAEDDDFGTEHEQINGQCSCFQSIELLKSRPAHLAVFLHHVVSQFDPATLLCYLYSDLYKQTNSKETRRVFLEFHQFFLDRSAVNGTLVTHSNHLEVVKLIRSGSYVALTVQGRPPGSPQIPLADSEVEPSVTGHMSPIMTSPHSPGAAGNMERITSPVLVGEENNVVHNQKVEILRKMLQKEQERLQLLQEDYNRTATQRLLKEIQEAKKHIPQLQEQLSKATGSAQDGAVIAPSRPLGDALTLSEAEADPGDGLCRTDWSSGDASRPSSDSADSPKSSLRERSYLEEAPERSEGVQDAQEPQSLVGSPSTRGAPHIIGAEDDDFGTEHEQINGQCSCFQSIELLKSRPAHLAVFLHHVVSQFDPATLLCYLYSDLYKQTNSKETRRVFLEFHQFFLDRSA
IRESfinder result
IRESfinder score
0.551849813
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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