top of page
mmu_circRock1_953
Basic information of circular RNA
PanCircBase ID:
mmu_circRock1_953
mm39_Chr. Position ID:
chr18|10072831|10092223|-
Gene name:
Rock1
Transcript:
ENSMUST00000067947.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
29,28,27,26,25,24,23,22
Exon/intron offsets:
0,283,6283,7519,10290,11486,17981,19297
Genomic length:
19392
Exon/intron sizes in nt:
89,71,160,189,89,94,166,95
Flanking exon/introns:
chr18:10070700-10072831|chr18:10092223-10093907
Splice length:
953
Other database IDs:
CIRCpedia: HSA_CIRCpedia_360170
Human Ortholog IDs:
Mature spliced Sequence:
ACACTTTATAAAACCCAAGTAAAGGAGCTTAAAGAAGAAATTGAAGAAAAAAACCGAGAAAATTTAAGGAAAATACAGGAACTGCAAAGTGAAAAAGAAACTCTCTCTACTCAGTTGGATTTAGCAGAAACAAAAGCTGAGTCTGAGCAGCTGGCGCGAGGGATTCTGGAAGAACAGTATTTTGAGTTGACTCAGGAAAGCAAGAAAGCTGCTTCAAGAAATAGACAAGAGATTACAGATAAAGATCATACTGTTAGTCGGCTTGAAGAAACAAACAGTGTGCTAACCAAAGATATTGAAATGCTAAGAAAAGAAAATGAAGAGCTAAATGAAAGAATGAGGACAGCAGAAGAAGAATATAAATTGAAGAAGGAGGAAGAAATAAATAATCTTAAGGCTGCTTTTGAAAAGAATATCAGTACCGAACGGACCCTTAAAACACAGGCTGTTAACAAGTTGGCAGAAATAATGAATCGCAAAGATTTTAAAATTGATCGAAAGAAAGCTAATACACAAGATTTAAGAAAAAAAGAAAAGGAAAATAGAAAGCTACAACTGGAACTTAACCAAGAGAGAGAAAAATTTAACCAAATGGTGGTGAAACACCAGAAGGAGCTGAATGACATGCAAGCGCAATTGGTAGAAGAATGTACACATAGAAATGAACTTCAAATGCAGTTGGCTAGCAAAGAGAGTGATATTGAGCAGTTGCGGGCAAAACTTTTGGACCTTTCGGATTCAACTAGTGTTGCTAGTTTTCCTAGTGCAGATGAAACTGATGGAAACCTTCCAGAGTCAAGAATTGAAGGTTGGCTTTCTGTACCAAATAGAGGAAATATCAAAAGATATGGCTGGAAGAAACAGTATGTTGTGGTAAGCAGCAAAAAGATCTTGTTCTATAATGATGAACAAGATAAGGAACAATCCAGTCCATCTATGGTGTTAGACATAGA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GTTGTGGTAAGCAGCAAAAAGA
57.96
TTTCACTTTGCAGTTCCTGT
55.7
180
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGTGGTAAGCAGCAAAAAGATCT
58.86
TTTCACTTTGCAGTTCCTGT
55.7
178
PCR template sequence:
GGAAGAAACAGTATGTTGTGGTAAGCAGCAAAAAGATCTTGTTCTATAATGATGAACAAGATAAGGAACAATCCAGTCCATCTATGGTGTTAGACATAGAACACTTTATAAAACCCAAGTAAAGGAGCTTAAAGAAGAAATTGAAGAAAAAAACCGAGAAAATTTAAGGAAAATACAGGAACTGCAAAGTGAAAAAGAAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-7b-5p(1), mmu-miR-429-3p(1), mmu-miR-7a-5p(1), mmu-miR-544-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TGTTAGACATAGAACACTTTATAAAA
siRNA sets
TTATAAAGTGTTCTATGTC, TTTTATAAAGTGTTCTATG, TTTATAAAGTGTTCTATGT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCROCK1_953_ORF_1
1.0508
0.086440355
0.868858505
675
ORF sequence:
ATGCTAAGAAAAGAAAATGAAGAGCTAAATGAAAGAATGAGGACAGCAGAAGAAGAATATAAATTGAAGAAGGAGGAAGAAATAAATAATCTTAAGGCTGCTTTTGAAAAGAATATCAGTACCGAACGGACCCTTAAAACACAGGCTGTTAACAAGTTGGCAGAAATAATGAATCGCAAAGATTTTAAAATTGATCGAAAGAAAGCTAATACACAAGATTTAAGAAAAAAAGAAAAGGAAAATAGAAAGCTACAACTGGAACTTAACCAAGAGAGAGAAAAATTTAACCAAATGGTGGTGAAACACCAGAAGGAGCTGAATGACATGCAAGCGCAATTGGTAGAAGAATGTACACATAGAAATGAACTTCAAATGCAGTTGGCTAGCAAAGAGAGTGATATTGAGCAGTTGCGGGCAAAACTTTTGGACCTTTCGGATTCAACTAGTGTTGCTAGTTTTCCTAGTGCAGATGAAACTGATGGAAACCTTCCAGAGTCAAGAATTGAAGGTTGGCTTTCTGTACCAAATAGAGGAAATATCAAAAGATATGGCTGGAAGAAACAGTATGTTGTGGTAAGCAGCAAAAAGATCTTGTTCTATAATGATGAACAAGATAAGGAACAATCCAGTCCATCTATGGTGTTAGACATAGAACACTTTATAAAACCCAAGTAA
Peptide sequence:
MLRKENEELNERMRTAEEEYKLKKEEEINNLKAAFEKNISTERTLKTQAVNKLAEIMNRKDFKIDRKKANTQDLRKKEKENRKLQLELNQEREKFNQMVVKHQKELNDMQAQLVEECTHRNELQMQLASKESDIEQLRAKLLDLSDSTSVASFPSADETDGNLPESRIEGWLSVPNRGNIKRYGWKKQYVVVSSKKILFYNDEQDKEQSSPSMVLDIEHFIKPK
IRESfinder result
IRESfinder score
0.521638227
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page