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mmu_circArhgap26_230
Basic information of circular RNA
PanCircBase ID:
mmu_circArhgap26_230
mm39_Chr. Position ID:
chr18|39230682|39235293|+
Gene name:
Arhgap26
Transcript:
ENSMUST00000148850.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
3,4,5
Exon/intron offsets:
0,1942,4539
Genomic length:
4611
Exon/intron sizes in nt:
96,62,72
Flanking exon/introns:
chr18:39067017-39230682|chr18:39235293-39243507
Splice length:
230
Other database IDs:
circBase: mmu_circ_0000863, CIRCpedia: MMU_CIRCpedia_19040, circAtlas: mmu-Arhgap26_0011
circAtlas: hsa-ARHGAP26_0017, CIRCpedia: HSA_CIRCpedia_50573
Human Ortholog IDs:
Mature spliced Sequence:
ATTTGTCTTCGGCAAAGCGGAAGTTTGCAGATTCCTTAAATGAATTTAAATTTCAGTGTATAGGAGATGCCGAAACAGATGATGAGATGTGTATAGCGAGATCTTTGCAAGAATTTGCTGCTGTTCTCAGGAATCTTGAAGACGAGCGGAGTCGAATGATCGAGAATGCCAGCGAGGTGCTCATCACACCCTTGGAGAAGTTTCGAAAGGAGCAGATTGGGGCCGCCAGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACGAGCGGAGTCGAATGATC
59.97
TCATCTGTTTCGGCATCTCCT
59.17
171
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GACGAGCGGAGTCGAATGAT
59.97
TCATCTGTTTCGGCATCTCCT
59.17
172
PCR template sequence:
GAATCTTGAAGACGAGCGGAGTCGAATGATCGAGAATGCCAGCGAGGTGCTCATCACACCCTTGGAGAAGTTTCGAAAGGAGCAGATTGGGGCCGCCAGGATTTGTCTTCGGCAAAGCGGAAGTTTGCAGATTCCTTAAATGAATTTAAATTTCAGTGTATAGGAGATGCCGAAACAGATGATGAGATGTGTATAGCGAG
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-322-5p(1), mmu-miR-15b-5p(1), mmu-miR-680(1)
siRNAs for circular RNA silencing
Junction sequence
TGGGGCCGCCAGGATTTGTCTTCGGC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCARHGAP26_230_ORF_1
0.9735
0.237258635
0.239963192
183
ORF sequence:
ATGTGTATAGCGAGATCTTTGCAAGAATTTGCTGCTGTTCTCAGGAATCTTGAAGACGAGCGGAGTCGAATGATCGAGAATGCCAGCGAGGTGCTCATCACACCCTTGGAGAAGTTTCGAAAGGAGCAGATTGGGGCCGCCAGGATTTGTCTTCGGCAAAGCGGAAGTTTGCAGATTCCTTAA
Peptide sequence:
MCIARSLQEFAAVLRNLEDERSRMIENASEVLITPLEKFRKEQIGAARICLRQSGSLQIP
IRESfinder result
IRESfinder score
0.275463185
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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