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mmu_circRock1_598
Basic information of circular RNA
PanCircBase ID:
mmu_circRock1_598
mm39_Chr. Position ID:
chr18|10072831|10083210|-
Gene name:
Rock1
Transcript:
ENSMUST00000067947.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
29,28,27,26,25
Exon/intron offsets:
0,283,6283,7519,10290
Genomic length:
10379
Exon/intron sizes in nt:
89,71,160,189,89
Flanking exon/introns:
chr18:10070700-10072831|chr18:10083210-10084317
Splice length:
598
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
AATATAAATTGAAGAAGGAGGAAGAAATAAATAATCTTAAGGCTGCTTTTGAAAAGAATATCAGTACCGAACGGACCCTTAAAACACAGGCTGTTAACAAGTTGGCAGAAATAATGAATCGCAAAGATTTTAAAATTGATCGAAAGAAAGCTAATACACAAGATTTAAGAAAAAAAGAAAAGGAAAATAGAAAGCTACAACTGGAACTTAACCAAGAGAGAGAAAAATTTAACCAAATGGTGGTGAAACACCAGAAGGAGCTGAATGACATGCAAGCGCAATTGGTAGAAGAATGTACACATAGAAATGAACTTCAAATGCAGTTGGCTAGCAAAGAGAGTGATATTGAGCAGTTGCGGGCAAAACTTTTGGACCTTTCGGATTCAACTAGTGTTGCTAGTTTTCCTAGTGCAGATGAAACTGATGGAAACCTTCCAGAGTCAAGAATTGAAGGTTGGCTTTCTGTACCAAATAGAGGAAATATCAAAAGATATGGCTGGAAGAAACAGTATGTTGTGGTAAGCAGCAAAAAGATCTTGTTCTATAATGATGAACAAGATAAGGAACAATCCAGTCCATCTATGGTGTTAGACATAGA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CAGTATGTTGTGGTAAGCAGCA
58.93
AGGGTCCGTTCGGTACTGAT
60.32
171
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CAGTATGTTGTGGTAAGCAGCA
58.93
AAGGGTCCGTTCGGTACTGA
60.54
172
PCR template sequence:
GGAAGAAACAGTATGTTGTGGTAAGCAGCAAAAAGATCTTGTTCTATAATGATGAACAAGATAAGGAACAATCCAGTCCATCTATGGTGTTAGACATAGAAATATAAATTGAAGAAGGAGGAAGAAATAAATAATCTTAAGGCTGCTTTTGAAAAGAATATCAGTACCGAACGGACCCTTAAAACACAGGCTGTTAACAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-7b-5p(1), mmu-miR-7a-5p(1), mmu-miR-544-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TGTTAGACATAGAAATATAAATTGAA
siRNA sets
ATTTATATTTCTATGTCTA, CAATTTATATTTCTATGTC, TTTATATTTCTATGTCTAA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCROCK1_598_ORF_1
1.0514
0.062712227
0.620343628
492
ORF sequence:
ATGAATCGCAAAGATTTTAAAATTGATCGAAAGAAAGCTAATACACAAGATTTAAGAAAAAAAGAAAAGGAAAATAGAAAGCTACAACTGGAACTTAACCAAGAGAGAGAAAAATTTAACCAAATGGTGGTGAAACACCAGAAGGAGCTGAATGACATGCAAGCGCAATTGGTAGAAGAATGTACACATAGAAATGAACTTCAAATGCAGTTGGCTAGCAAAGAGAGTGATATTGAGCAGTTGCGGGCAAAACTTTTGGACCTTTCGGATTCAACTAGTGTTGCTAGTTTTCCTAGTGCAGATGAAACTGATGGAAACCTTCCAGAGTCAAGAATTGAAGGTTGGCTTTCTGTACCAAATAGAGGAAATATCAAAAGATATGGCTGGAAGAAACAGTATGTTGTGGTAAGCAGCAAAAAGATCTTGTTCTATAATGATGAACAAGATAAGGAACAATCCAGTCCATCTATGGTGTTAGACATAGAAATATAA
Peptide sequence:
MNRKDFKIDRKKANTQDLRKKEKENRKLQLELNQEREKFNQMVVKHQKELNDMQAQLVEECTHRNELQMQLASKESDIEQLRAKLLDLSDSTSVASFPSADETDGNLPESRIEGWLSVPNRGNIKRYGWKKQYVVVSSKKILFYNDEQDKEQSSPSMVLDIEI
IRESfinder result
IRESfinder score
0.47285415
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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