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mmu_circRock1_255
Basic information of circular RNA
PanCircBase ID:
mmu_circRock1_255
mm39_Chr. Position ID:
chr18|10093907|10095597|-
Gene name:
Rock1
Transcript:
ENSMUST00000067947.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
21,20
Exon/intron offsets:
0,1505
Genomic length:
1690
Exon/intron sizes in nt:
70,185
Flanking exon/introns:
chr18:10092223-10093907|chr18:10095597-10097482
Splice length:
255
Other database IDs:
circAtlas: mmu-Rock1_0007
circBase: hsa_circ_0107997, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_67871
Human Ortholog IDs:
Mature spliced Sequence:
GTTAAGAATCTCGCCCTGCAGCTGGAACAGGAATCAAATAAACGGCTCTTGTTACAGAATGAATTGAAGACTCAAGCATTTGAAGCAGACAATTTAAAAGGTTTAGAAAAACAGATGAAACAGGAAATAAATACTTTATTGGAAGCAAAGAGATTGTTAGAATTTGAGTTAGCTCAGCTTACAAAGCAATATAGGGGAAATGAAGGGCAAATGCGGGAGTTACAAGATCAACTTGAAGCTGAGCAGTATTTCTCT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AAGGGCAAATGCGGGAGTTA
59.96
TGTCTGCTTCAAATGCTTGAGT
58.78
144
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AAGGGCAAATGCGGGAGTTA
59.96
TGTCTGCTTCAAATGCTTGAGTC
59.75
144
PCR template sequence:
GTTAGAATTTGAGTTAGCTCAGCTTACAAAGCAATATAGGGGAAATGAAGGGCAAATGCGGGAGTTACAAGATCAACTTGAAGCTGAGCAGTATTTCTCTGTTAAGAATCTCGCCCTGCAGCTGGAACAGGAATCAAATAAACGGCTCTTGTTACAGAATGAATTGAAGACTCAAGCATTTGAAGCAGACAATTTAAAAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-200b-3p(1), mmu-miR-200c-3p(1), mmu-miR-205-5p(1), mmu-miR-539-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GCAGTATTTCTCTGTTAAGAATCTCG
siRNA sets
CTTAACAGAGAAATACTGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCROCK1_255_ORF_1
0.9579
0.00352595
0.353977428
396
ORF sequence:
ATGAAACAGGAAATAAATACTTTATTGGAAGCAAAGAGATTGTTAGAATTTGAGTTAGCTCAGCTTACAAAGCAATATAGGGGAAATGAAGGGCAAATGCGGGAGTTACAAGATCAACTTGAAGCTGAGCAGTATTTCTCTGTTAAGAATCTCGCCCTGCAGCTGGAACAGGAATCAAATAAACGGCTCTTGTTACAGAATGAATTGAAGACTCAAGCATTTGAAGCAGACAATTTAAAAGGTTTAGAAAAACAGATGAAACAGGAAATAAATACTTTATTGGAAGCAAAGAGATTGTTAGAATTTGAGTTAGCTCAGCTTACAAAGCAATATAGGGGAAATGAAGGGCAAATGCGGGAGTTACAAGATCAACTTGAAGCTGAGCAGTATTTCTCT
Peptide sequence:
MKQEINTLLEAKRLLEFELAQLTKQYRGNEGQMRELQDQLEAEQYFSVKNLALQLEQESNKRLLLQNELKTQAFEADNLKGLEKQMKQEINTLLEAKRLLEFELAQLTKQYRGNEGQMRELQDQLEAEQYFS
IRESfinder result
IRESfinder score
0.732998409
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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