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mmu_circRhot1_211
Basic information of circular RNA
PanCircBase ID:
mmu_circRhot1_211
mm39_Chr. Position ID:
chr11|80124207|80124856|+
Gene name:
Rhot1
Transcript:
ENSMUST00000077451.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
7,8
Exon/intron offsets:
0,547
Genomic length:
649
Exon/intron sizes in nt:
1,09,102
Flanking exon/introns:
chr11:80118158-80124207|chr11:80124856-80132846
Splice length:
211
Other database IDs:
CIRCpedia: MMU_CIRCpedia_216326, circAtlas: mmu-Rhot1_0006
circBase: hsa_circ_0106605, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_20153
Human Ortholog IDs:
Mature spliced Sequence:
GCTGCCTTTGATATTGGTTGGGAACAAATCTGATCTGGTGGAATATAGTAGTATGGAGACCATCCTTCCAATTATGAACCAGTATACAGAGATAGAGACCTGTGTGGAGTGTTCAGCAAAAAACCTAAAGAATATCTCAGAGCTGTTTTATTATGCACAGAAAGCTGTTCTTCATCCTACAGGGCCTCTATACTGCCCAGAGGAGAAAGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCTTCATCCTACAGGGCCTCT
59.71
GGTCTCTATCTCTGTATACTGGTTCA
59
143
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCTTCATCCTACAGGGCCTCT
59.71
GGTCTCTATCTCTGTATACTGGT
55.85
143
PCR template sequence:
TTCAGCAAAAAACCTAAAGAATATCTCAGAGCTGTTTTATTATGCACAGAAAGCTGTTCTTCATCCTACAGGGCCTCTATACTGCCCAGAGGAGAAAGAGGCTGCCTTTGATATTGGTTGGGAACAAATCTGATCTGGTGGAATATAGTAGTATGGAGACCATCCTTCCAATTATGAACCAGTATACAGAGATAGAGACC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
NA
Interacting miRNAs (#binding sites)
NA
siRNAs for circular RNA silencing
Junction sequence
AGAGGAGAAAGAGGCTGCCTTTGATA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCRHOT1_211_ORF_1
1.0101
0.094848835
0.261468432
270
ORF sequence:
ATGCACAGAAAGCTGTTCTTCATCCTACAGGGCCTCTATACTGCCCAGAGGAGAAAGAGGCTGCCTTTGATATTGGTTGGGAACAAATCTGATCTGGTGGAATATAGTAGTATGGAGACCATCCTTCCAATTATGAACCAGTATACAGAGATAGAGACCTGTGTGGAGTGTTCAGCAAAAAACCTAAAGAATATCTCAGAGCTGTTTTATTATGCACAGAAAGCTGTTCTTCATCCTACAGGGCCTCTATACTGCCCAGAGGAGAAAGAG
Peptide sequence:
MHRKLFFILQGLYTAQRRKRLPLILVGNKSDLVEYSSMETILPIMNQYTEIETCVECSAKNLKNISELFYYAQKAVLHPTGPLYCPEEKE
IRESfinder result
IRESfinder score
0.785228011
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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