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mmu_circArhgap24_329
Basic information of circular RNA
PanCircBase ID:
mmu_circArhgap24_329
mm39_Chr. Position ID:
chr5|103023560|103028748|+
Gene name:
Arhgap24
Transcript:
ENSMUST00000073302.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
5,6,7
Exon/intron offsets:
0,2746,5066
Genomic length:
5188
Exon/intron sizes in nt:
1,33,74,122
Flanking exon/introns:
chr5:103008403-103023560|chr5:103028748-103039707
Splice length:
329
Other database IDs:
CIRCpedia: MMU_CIRCpedia_793, circAtlas: mmu-Arhgap24_0001
circAtlas: hsa-ARHGAP24_0001, CIRCpedia: HSA_CIRCpedia_103301
Human Ortholog IDs:
Mature spliced Sequence:
CAACACCGACGTCCACACTGTGGCATCCCTGCTGAAATTGTATCTCCGAGAACTTCCAGAGCCCGTCGTTCCTTATGCAAAGTATGAAGACTTTTTGTCCTGCGCCACGCTGCTCAGTAAGGAGGAAGAAGCAGGTGTTAAGGAGCTAATGAAACAAGTGAAGAGTTTGCCTGTGGTTAACTACAACCTTCTGAAGTACATTTGCAGGTTCCTGGATGAAGTGCAGTCCTATTCAGGAGTTAACAAGATGAGCGCACAGAACTTGGCAACTGTCTTCGGTCCTAACATCCTGCGCCCAAAGGTGGAAGATCCCTTGACCATCATGGAGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CGCACAGAACTTGGCAACTG
60.32
GACGGGCTCTGGAAGTTCTC
60.11
144
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CGCACAGAACTTGGCAACTG
60.32
GGCTCTGGAAGTTCTCGGAG
59.83
140
PCR template sequence:
TATTCAGGAGTTAACAAGATGAGCGCACAGAACTTGGCAACTGTCTTCGGTCCTAACATCCTGCGCCCAAAGGTGGAAGATCCCTTGACCATCATGGAGGCAACACCGACGTCCACACTGTGGCATCCCTGCTGAAATTGTATCTCCGAGAACTTCCAGAGCCCGTCGTTCCTTATGCAAAGTATGAAGACTTTTTGTCC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
1
Interacting miRNAs (#binding sites)
mmu-miR-503-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ACCATCATGGAGGCAACACCGACGTC
siRNA sets
GACGTCGGTGTTGCCTCCA,GGTGTTGCCTCCATGATGG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCARHGAP24_329_ORF_1
1.127
0.26423302
0.372007429
216
ORF sequence:
ATGAAACAAGTGAAGAGTTTGCCTGTGGTTAACTACAACCTTCTGAAGTACATTTGCAGGTTCCTGGATGAAGTGCAGTCCTATTCAGGAGTTAACAAGATGAGCGCACAGAACTTGGCAACTGTCTTCGGTCCTAACATCCTGCGCCCAAAGGTGGAAGATCCCTTGACCATCATGGAGGCAACACCGACGTCCACACTGTGGCATCCCTGCTGA
Peptide sequence:
MKQVKSLPVVNYNLLKYICRFLDEVQSYSGVNKMSAQNLATVFGPNILRPKVEDPLTIMEATPTSTLWHPC
IRESfinder result
IRESfinder score
0.483640416
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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