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mmu_ciArhgap12_1617
Basic information of circular RNA
PanCircBase ID:
mmu_ciArhgap12_1617
mm39_Chr. Position ID:
chr18|6055899|6057516|-
Gene name:
Arhgap12
Transcript:
ENSMUST00000182066.8
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
5
Exon/intron offsets:
0
Genomic length:
1617
Exon/intron sizes in nt:
1617
Flanking exon/introns:
chr18:6052923-6057516
Splice length:
1617
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTTAGTATGTTAGAAACATACAGAATAAATAGCCTAGCCTTTTCAATCACTTTCAGGAAATTAATTTTCTTTAAATATAATGTTGAAGTATTTCTTGTGCCTCTATTAAATTTTATTGGCCTTTTAGAAAAATTATAACTAAAACAGTTTTAAGAATCAAATTTTATTCATTTTAAAGCCCCTTTTGTATAAAATATGCTATTAGTTTATATTTACATATATGCTATATTTAAATATATGCCATATTTCAAAGTGACAAATTTATACTTAGTTTTTAAAAGTAAAAAATTCTAAGCCAGGTCTGGTGGCACATGCCTTTAGTTCTGGCACTCAGGAGGCAGAGGCAGAGGCAGAGGCAGAGGCAGAGGCAGATGGATCTCTGTGAGTTCCAAGGCCAGCATGGTCTACATAGTGAGTTCCAGGACAGCCAGGACTTCACAGAGAAACACTGTCTCAAAAAACAAGCCACAGAACTTCCCCAGAGAATATTACAAATTAAATTATACTTCCCTTTCTTTCCCAGGCCGGCAGTCTGAAGGTAAGATGTATGCCCTTCCTTTTTAGTTGTGATTTGGAAGAGCTTGTCAGTCTGGGCCAGGGAGGACTAGAGATGATAAGTCTGACTGAAACCTCCCAGCAGCTTTTCTCCTCACAGTGAAGCCCGTGTTTGGACCCTTTGACCTCATCCTCATATTCACACACTCCTGCTTTTCCTGTCAACACTGCTCTGCTCTTGCCTTGTACTGCTGTCCTTATTGGGTAACATTTAACATTTTTTTAAGGAGAACATTTTTAAGCAAGACATATATGCTTTGGCTCTTGTCTGTGTCCCTAGCTCATACTTCATGTGTCCTCTTCTCCCATACTGCACAACACTTTGGTTGGTCTCTCACCCTTTCCTCTGCCACCGAGGCTCTGCCACACCTTTGCCTGGAAGCCTGTGCATACCCACCAGGATTAAGTTCAGAGTGTGCTTCCTCAGAGAATGTAGGCCAGTCCTCTAGGTGAGATGAGGTTCCTTGTGATACTCCTTGTAGCCTGACTTCTGTTTATTTCATAAAAGCAAGAACACCCTCTGTGGTCCAGCTTGTCACTGTCTTCTCAGCAAGGAGACACTGTTAGCAGAGGCGGGAAGATTCATTCCTACCGCACAGCCACACAGTAGTTGCTGAGCAAATACTCGTTGAGTTAATGAATTTAACACTTTAAAAAGACAAACTTTGATCGTTACTATTTGATGAAGTTAGGTTAAACTTCTGTTTACTTGTCAGACTTTAGATTCTTTGCAAGCACTGGCTTCACTTCCTTCTGATCATTCTGACTTTTGTTTTCCTTTTCCCATATATATATGTGGCAAGACATGTATATTTCTTTTTAATTGTTCTTTTTGTTTCTTTTATTTTATGATTCCCATCACATTGTATATACTTTTTATTTTTAATTAGCACTAAGTAAGCTAAGAGGTAATGATGGGATGTATTTTTAAATATAGGCAGTACACATTTTACAGAAATATCTCCATAGACTATGTTTTAATAAAAAGGAATTTCTAAGTAATTGTAGAAACAAGAATTTGTAAATCCTTCATACAGTTTAAAAACACTGTTGGTCAATGAT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGGAATTTCTAAGTAATTGTAGAAACA
55.34
TTAATTTCCTGAAAGTGATTGAAAAGG
57.24
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGAAACAAGAATTTGTAAATCCTTCA
56.07
GCACAAGAAATACTTCAACATTATATT
55.38
156
PCR template sequence:
TCCATAGACTATGTTTTAATAAAAAGGAATTTCTAAGTAATTGTAGAAACAAGAATTTGTAAATCCTTCATACAGTTTAAAAACACTGTTGGTCAATGATGTTAGTATGTTAGAAACATACAGAATAAATAGCCTAGCCTTTTCAATCACTTTCAGGAAATTAATTTTCTTTAAATATAATGTTGAAGTATTTCTTGTGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
10
Interacting miRNAs (#binding sites)
mmu-miR-320-3p(2), mmu-miR-122-5p(1), mmu-miR-335-5p(1), mmu-miR-298-5p(1), mmu-miR-383-5p(1), mmu-miR-690(1), mmu-miR-3087-3p(1), mmu-miR-3470b(1), mmu-miR-193b-3p(1), mmu-miR-574-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GTTGGTCAATGATGTTAGTATGTTAG
siRNA sets
TAACATACTAACATCATTG, ATACTAACATCATTGACCA, AACATACTAACATCATTGA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.921504372
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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