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mmu_circRock1_1208
Basic information of circular RNA
PanCircBase ID:
mmu_circRock1_1208
mm39_Chr. Position ID:
chr18|10072831|10095597|-
Gene name:
Rock1
Transcript:
ENSMUST00000067947.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
10
Exon/intron indexes:
29,28,27,26,25,24,23,22,21,20
Exon/intron offsets:
0,283,6283,7519,10290,11486,17981,19297,21076,22581
Genomic length:
22766
Exon/intron sizes in nt:
8,97,11,60,18,98,99,41,00,00,00,000
Flanking exon/introns:
chr18:10070700-10072831|chr18:10095597-10097482
Splice length:
1208
Other database IDs:
circBase: hsa_circ_0047058
Human Ortholog IDs:
Mature spliced Sequence:
GTTAAGAATCTCGCCCTGCAGCTGGAACAGGAATCAAATAAACGGCTCTTGTTACAGAATGAATTGAAGACTCAAGCATTTGAAGCAGACAATTTAAAAGGTTTAGAAAAACAGATGAAACAGGAAATAAATACTTTATTGGAAGCAAAGAGATTGTTAGAATTTGAGTTAGCTCAGCTTACAAAGCAATATAGGGGAAATGAAGGGCAAATGCGGGAGTTACAAGATCAACTTGAAGCTGAGCAGTATTTCTCTACACTTTATAAAACCCAAGTAAAGGAGCTTAAAGAAGAAATTGAAGAAAAAAACCGAGAAAATTTAAGGAAAATACAGGAACTGCAAAGTGAAAAAGAAACTCTCTCTACTCAGTTGGATTTAGCAGAAACAAAAGCTGAGTCTGAGCAGCTGGCGCGAGGGATTCTGGAAGAACAGTATTTTGAGTTGACTCAGGAAAGCAAGAAAGCTGCTTCAAGAAATAGACAAGAGATTACAGATAAAGATCATACTGTTAGTCGGCTTGAAGAAACAAACAGTGTGCTAACCAAAGATATTGAAATGCTAAGAAAAGAAAATGAAGAGCTAAATGAAAGAATGAGGACAGCAGAAGAAGAATATAAATTGAAGAAGGAGGAAGAAATAAATAATCTTAAGGCTGCTTTTGAAAAGAATATCAGTACCGAACGGACCCTTAAAACACAGGCTGTTAACAAGTTGGCAGAAATAATGAATCGCAAAGATTTTAAAATTGATCGAAAGAAAGCTAATACACAAGATTTAAGAAAAAAAGAAAAGGAAAATAGAAAGCTACAACTGGAACTTAACCAAGAGAGAGAAAAATTTAACCAAATGGTGGTGAAACACCAGAAGGAGCTGAATGACATGCAAGCGCAATTGGTAGAAGAATGTACACATAGAAATGAACTTCAAATGCAGTTGGCTAGCAAAGAGAGTGATATTGAGCAGTTGCGGGCAAAACTTTTGGACCTTTCGGATTCAACTAGTGTTGCTAGTTTTCCTAGTGCAGATGAAACTGATGGAAACCTTCCAGAGTCAAGAATTGAAGGTTGGCTTTCTGTACCAAATAGAGGAAATATCAAAAGATATGGCTGGAAGAAACAGTATGTTGTGGTAAGCAGCAAAAAGATCTTGTTCTATAATGATGAACAAGATAAGGAACAATCCAGTCCATCTATGGTGTTAGACATAGA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGTTGTGGTAAGCAGCAAAAAGA
59.55
TGTCTGCTTCAAATGCTTGAGT
58.78
178
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGTTGTGGTAAGCAGCAAAAAGA
59.55
TGTCTGCTTCAAATGCTTGAGTC
59.75
178
PCR template sequence:
GGAAGAAACAGTATGTTGTGGTAAGCAGCAAAAAGATCTTGTTCTATAATGATGAACAAGATAAGGAACAATCCAGTCCATCTATGGTGTTAGACATAGAGTTAAGAATCTCGCCCTGCAGCTGGAACAGGAATCAAATAAACGGCTCTTGTTACAGAATGAATTGAAGACTCAAGCATTTGAAGCAGACAATTTAAAAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
9
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-7b-5p(1), mmu-miR-429-3p(1), mmu-miR-200b-3p(1), mmu-miR-200c-3p(1), mmu-miR-205-5p(1), mmu-miR-7a-5p(1), mmu-miR-539-5p(1), mmu-miR-544-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TGTTAGACATAGAGTTAAGAATCTCG
siRNA sets
AGATTCTTAACTCTATGTC, ATTCTTAACTCTATGTCTA, GATTCTTAACTCTATGTCT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCROCK1_1208_ORF_1
1.049
0.069783081
0.995105191
1161
ORF sequence:
ATGAAACAGGAAATAAATACTTTATTGGAAGCAAAGAGATTGTTAGAATTTGAGTTAGCTCAGCTTACAAAGCAATATAGGGGAAATGAAGGGCAAATGCGGGAGTTACAAGATCAACTTGAAGCTGAGCAGTATTTCTCTACACTTTATAAAACCCAAGTAAAGGAGCTTAAAGAAGAAATTGAAGAAAAAAACCGAGAAAATTTAAGGAAAATACAGGAACTGCAAAGTGAAAAAGAAACTCTCTCTACTCAGTTGGATTTAGCAGAAACAAAAGCTGAGTCTGAGCAGCTGGCGCGAGGGATTCTGGAAGAACAGTATTTTGAGTTGACTCAGGAAAGCAAGAAAGCTGCTTCAAGAAATAGACAAGAGATTACAGATAAAGATCATACTGTTAGTCGGCTTGAAGAAACAAACAGTGTGCTAACCAAAGATATTGAAATGCTAAGAAAAGAAAATGAAGAGCTAAATGAAAGAATGAGGACAGCAGAAGAAGAATATAAATTGAAGAAGGAGGAAGAAATAAATAATCTTAAGGCTGCTTTTGAAAAGAATATCAGTACCGAACGGACCCTTAAAACACAGGCTGTTAACAAGTTGGCAGAAATAATGAATCGCAAAGATTTTAAAATTGATCGAAAGAAAGCTAATACACAAGATTTAAGAAAAAAAGAAAAGGAAAATAGAAAGCTACAACTGGAACTTAACCAAGAGAGAGAAAAATTTAACCAAATGGTGGTGAAACACCAGAAGGAGCTGAATGACATGCAAGCGCAATTGGTAGAAGAATGTACACATAGAAATGAACTTCAAATGCAGTTGGCTAGCAAAGAGAGTGATATTGAGCAGTTGCGGGCAAAACTTTTGGACCTTTCGGATTCAACTAGTGTTGCTAGTTTTCCTAGTGCAGATGAAACTGATGGAAACCTTCCAGAGTCAAGAATTGAAGGTTGGCTTTCTGTACCAAATAGAGGAAATATCAAAAGATATGGCTGGAAGAAACAGTATGTTGTGGTAAGCAGCAAAAAGATCTTGTTCTATAATGATGAACAAGATAAGGAACAATCCAGTCCATCTATGGTGTTAGACATAGAGTTAAGAATCTCGCCCTGCAGCTGGAACAGGAATCAAATAAACGGCTCTTGTTACAGAATGAATTGA
Peptide sequence:
MKQEINTLLEAKRLLEFELAQLTKQYRGNEGQMRELQDQLEAEQYFSTLYKTQVKELKEEIEEKNRENLRKIQELQSEKETLSTQLDLAETKAESEQLARGILEEQYFELTQESKKAASRNRQEITDKDHTVSRLEETNSVLTKDIEMLRKENEELNERMRTAEEEYKLKKEEEINNLKAAFEKNISTERTLKTQAVNKLAEIMNRKDFKIDRKKANTQDLRKKEKENRKLQLELNQEREKFNQMVVKHQKELNDMQAQLVEECTHRNELQMQLASKESDIEQLRAKLLDLSDSTSVASFPSADETDGNLPESRIEGWLSVPNRGNIKRYGWKKQYVVVSSKKILFYNDEQDKEQSSPSMVLDIELRISPCSWNRNQINGSCYRMN
IRESfinder result
IRESfinder score
0.569806792
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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