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mmu_ciArhgap21_763
Basic information of circular RNA
PanCircBase ID:
mmu_ciArhgap21_763
mm39_Chr. Position ID:
chr2|20972531|20973294|-
Gene name:
Arhgap21
Transcript:
ENSMUST00000173654.2
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
1
Exon/intron offsets:
0
Genomic length:
763
Exon/intron sizes in nt:
763
Flanking exon/introns:
chr2:20972527-20973294
Splice length:
763
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAGGTGGGTGGTTTGCTCGTCGCTTTCCCCTCTGCTTCAGGTGGCCGGCGGGGAGGGCGAGCCGGGCTCGGGGGTGGGGGGCCGTAGCCGGGAGCTGAGAGTTGCCGGGGCCGCGGCTCTTCCGAAGCATGCTAGGGATCCGGAGCGGGAGCGGGAGCGGCGCCGCGTCCCACCCGCGGCCGCACGCCTCCCCACCCATCCCCGCCGCGGGCCAAGGAAAACAGCCGTCTCCTTGGGGGCGCGGGCCGGGGCGCAGGGCAGGCTGCCACGGCCGGCCGGAGTCACCCGCGGCCCGGGCGGCCGCCGCCACAGACGCCGCCGAGCCCACGCCCGCCCTGGTCCGAGCTGGCTTTTTGTTTGTTTGTTGGGGAGTTGTAGGGCGTCTGCGAGTCTAACCCGGTGCGGAGAAAACTTCGCTTAAGAGTAGGTGTCCGGGTGCTGCAGAATGAGCCCACTGCCTCGGCGTTGCCCAGGAAATGCAGCACTTGAATCGGGATTTTTTCTCCCCCCTTCTCGAAGGCTTCATAGCAGCCAGGCGTGTTTGACATAGCCACCGGGGCAGTTCTGAGGTCTCGTTCTCTTTCTCTAACCGACCTTCAGGCGTTTTCCTTCTTTTTTAATTGTTGCATGAGAGGATTCACCTTAGTAGACTTTACTTCTTCGTATTGTGGGAGAGGGGGAGCTTGGTCCGGGCTTGTGGCAAGGCTAAAGATCGGCGCCTGGGGAAAGTTCATGTCCTTCATTAACTTCTCCCTGTTCCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TATTGTGGGAGAGGGGGAGC
60.69
CACCTGAAGCAGAGGGGAAA
59.6
143
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TATTGTGGGAGAGGGGGAGC
60.69
CCTGAAGCAGAGGGGAAAGC
60.68
141
PCR template sequence:
GTATTGTGGGAGAGGGGGAGCTTGGTCCGGGCTTGTGGCAAGGCTAAAGATCGGCGCCTGGGGAAAGTTCATGTCCTTCATTAACTTCTCCCTGTTCCAGGTAGGTGGGTGGTTTGCTCGTCGCTTTCCCCTCTGCTTCAGGTGGCCGGCGGGGAGGGCGAGCCGGGCTCGGGGGTGGGGGGCCGTAGCCGGGAGCTGAG
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-495-3p(1), mmu-miR-127-3p(1), mmu-miR-125b-1-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CTCCCTGTTCCAGGTAGGTGGGTGGT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIARHGAP21_763_ORF_3
0.9153
-0.156748876
0.07385718
234
ORF sequence:
ATGAGAGGATTCACCTTAGTAGACTTTACTTCTTCGTATTGTGGGAGAGGGGGAGCTTGGTCCGGGCTTGTGGCAAGGCTAAAGATCGGCGCCTGGGGAAAGTTCATGTCCTTCATTAACTTCTCCCTGTTCCAGGTAGGTGGGTGGTTTGCTCGTCGCTTTCCCCTCTGCTTCAGGTGGCCGGCGGGGAGGGCGAGCCGGGCTCGGGGGTGGGGGGCCGTAGCCGGGAGCTGA
Peptide sequence:
MRGFTLVDFTSSYCGRGGAWSGLVARLKIGAWGKFMSFINFSLFQVGGWFARRFPLCFRWPAGRASRARGWGAVAGS
IRESfinder result
IRESfinder score
0.493787704
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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