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mmu_circArhgef28_486
Basic information of circular RNA
PanCircBase ID:
mmu_circArhgef28_486
mm39_Chr. Position ID:
chr13|98211506|98282103|-
Gene name:
Arhgef28
Transcript:
ENSMUST00000109426.3
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
4,3,2
Exon/intron offsets:
0,2174,70553
Genomic length:
70597
Exon/intron sizes in nt:
294,148,44
Flanking exon/introns:
chr13:98190482-98211506|chr13:98282103-98342580
Splice length:
486
Other database IDs:
circAtlas: mmu-Arhgef28_0020
circAtlas: hsa-ARHGEF28_0040, CIRCpedia: HSA_CIRCpedia_101245
Human Ortholog IDs:
Mature spliced Sequence:
ATGCAGGAGCCATGGAGTTGAGCTGCAGTGAAGTGCCTCTTTATGGACAGAAGACGGTCTATGCAAAGTTTGGCAAAAACGTGTATCTACCCGAAGATGCGGAGTTTTACTTTGTTTATGGCGGGTCGCATCAGAGGCACGTGGTGATTGCTGACCGTGTCCAGGACAATGTCCTCCAATCTAGCATTCCAGGCCACTGGCTTCAGGAGACGGTGACGGTATCTGTGTGCCTCTGCTCGGAAGGGTACTCCCCAGTGACCATGGGCTCTGGCTCAGTGACCTACGTGGACAACATGGCCTGCAGGCTGGCTCGTCTGCTGGTCACTCAGGCTGACCGACTCACGGCCTGCAGTCACCAGACGCTGCTGACCCCGTTTGCCCTGACAGTGGAAGCGCTGCCTGCCTTGGATGAGGAGCTCGTGCTGGCTCTGACCCAACTGGAGCTGCCTTTGGGTTGGACAGTCCTGGGAAATTCCTCACTTGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTGCCTTGGATGAGGAGCTC
60.18
GCATAGACCGTCTTCTGTCCA
59.52
151
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTGCCTTGGATGAGGAGCTC
60.18
TGCATAGACCGTCTTCTGTCC
59.52
152
PCR template sequence:
GTGGAAGCGCTGCCTGCCTTGGATGAGGAGCTCGTGCTGGCTCTGACCCAACTGGAGCTGCCTTTGGGTTGGACAGTCCTGGGAAATTCCTCACTTGAAGATGCAGGAGCCATGGAGTTGAGCTGCAGTGAAGTGCCTCTTTATGGACAGAAGACGGTCTATGCAAAGTTTGGCAAAAACGTGTATCTACCCGAAGATGC
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
TCCTCACTTGAAGATGCAGGAGCCAT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCARHGEF28_486_ORF_1
1.107
0.337552128
0.993943632
960
ORF sequence:
ATGGAGTTGAGCTGCAGTGAAGTGCCTCTTTATGGACAGAAGACGGTCTATGCAAAGTTTGGCAAAAACGTGTATCTACCCGAAGATGCGGAGTTTTACTTTGTTTATGGCGGGTCGCATCAGAGGCACGTGGTGATTGCTGACCGTGTCCAGGACAATGTCCTCCAATCTAGCATTCCAGGCCACTGGCTTCAGGAGACGGTGACGGTATCTGTGTGCCTCTGCTCGGAAGGGTACTCCCCAGTGACCATGGGCTCTGGCTCAGTGACCTACGTGGACAACATGGCCTGCAGGCTGGCTCGTCTGCTGGTCACTCAGGCTGACCGACTCACGGCCTGCAGTCACCAGACGCTGCTGACCCCGTTTGCCCTGACAGTGGAAGCGCTGCCTGCCTTGGATGAGGAGCTCGTGCTGGCTCTGACCCAACTGGAGCTGCCTTTGGGTTGGACAGTCCTGGGAAATTCCTCACTTGAAGATGCAGGAGCCATGGAGTTGAGCTGCAGTGAAGTGCCTCTTTATGGACAGAAGACGGTCTATGCAAAGTTTGGCAAAAACGTGTATCTACCCGAAGATGCGGAGTTTTACTTTGTTTATGGCGGGTCGCATCAGAGGCACGTGGTGATTGCTGACCGTGTCCAGGACAATGTCCTCCAATCTAGCATTCCAGGCCACTGGCTTCAGGAGACGGTGACGGTATCTGTGTGCCTCTGCTCGGAAGGGTACTCCCCAGTGACCATGGGCTCTGGCTCAGTGACCTACGTGGACAACATGGCCTGCAGGCTGGCTCGTCTGCTGGTCACTCAGGCTGACCGACTCACGGCCTGCAGTCACCAGACGCTGCTGACCCCGTTTGCCCTGACAGTGGAAGCGCTGCCTGCCTTGGATGAGGAGCTCGTGCTGGCTCTGACCCAACTGGAGCTGCCTTTGGGTTGGACAGTCCTGGGAAATTCCTCACTTGAA
Peptide sequence:
MELSCSEVPLYGQKTVYAKFGKNVYLPEDAEFYFVYGGSHQRHVVIADRVQDNVLQSSIPGHWLQETVTVSVCLCSEGYSPVTMGSGSVTYVDNMACRLARLLVTQADRLTACSHQTLLTPFALTVEALPALDEELVLALTQLELPLGWTVLGNSSLEDAGAMELSCSEVPLYGQKTVYAKFGKNVYLPEDAEFYFVYGGSHQRHVVIADRVQDNVLQSSIPGHWLQETVTVSVCLCSEGYSPVTMGSGSVTYVDNMACRLARLLVTQADRLTACSHQTLLTPFALTVEALPALDEELVLALTQLELPLGWTVLGNSSLE
IRESfinder result
IRESfinder score
0.398462806
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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