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mmu_circArhgap26_688
Basic information of circular RNA
PanCircBase ID:
mmu_circArhgap26_688
mm39_Chr. Position ID:
chr18|39253171|39363018|+
Gene name:
Arhgap26
Transcript:
ENSMUST00000097593.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
7,8,9,10,11,12,13,14
Exon/intron offsets:
0,1655,6714,11937,29921,85165,107249,109772
Genomic length:
109847
Exon/intron sizes in nt:
105,130,101,95,79,37,66,75
Flanking exon/introns:
chr18:39244953-39253171|chr18:39363018-39376658
Splice length:
688
Other database IDs:
CIRCpedia: MMU_CIRCpedia_19059, circAtlas: mmu-Arhgap26_0041
circAtlas: hsa-ARHGAP26_0059
Human Ortholog IDs:
Mature spliced Sequence:
CTGCTGGCCTTCCTGCAAGGACTCTTCACTTTCTATCACCATGGTTATGAGCTGGCCAAGGATTTTGGTGACTTTAAGACACAGTTGACCATCAGCATACAAAATACAAGAAACCGCTTTGAAGGAACCAGGTCTGAGGTGGAATCGCTGATGAAGAAGATGAAGGAAAACCCCCTGGAGCACAAGACCATCAGCCCGTACACCATGGAAGGGTACCTGTACGTGCAGGAGAAGCGTCACTTTGGAACTTCCTGGGTGAAGCACTACTGTACCTACCAACGGGATTCCAAACAAATCACCATGGTTCCATTCGACCAAAAGTCAGGAGGAAAGGGGGGAGAAGACGAGTCCGTTACCCTCAAATCCTGCACACGGCGAAAGACAGACTCCATCGAGAAGCGATTCTGCTTTGACGTGGAAGCAGTAGACAGGCCAGGGGTTATCACCATGCAGGCGTTGTCGGAAGAGGACCGTAGGCTCTGGATGGAAGCCATGGATGGCCGGGAACCTGTGTACAACTCCAACAGAGACAGCCAGAGCGAAGGGACCGCACAATTGGACAGTATCGGCTTCAGCATAATAAGGAAATGCATCCATGCGGTGGAGACCAGAGGGATCAATGAGCAGGGGCTCTACCGAATCGTGGGGGTCAACTCCAGGGTGCAGAAGTTGCTGAGCGTCCTGATGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GAGGGATCAATGAGCAGGGG
59.89
CACCAAAATCCTTGGCCAGC
60.04
148
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GAGGGATCAATGAGCAGGGG
59.89
ACCAAAATCCTTGGCCAGCT
60.18
147
PCR template sequence:
TGCATCCATGCGGTGGAGACCAGAGGGATCAATGAGCAGGGGCTCTACCGAATCGTGGGGGTCAACTCCAGGGTGCAGAAGTTGCTGAGCGTCCTGATGGCTGCTGGCCTTCCTGCAAGGACTCTTCACTTTCTATCACCATGGTTATGAGCTGGCCAAGGATTTTGGTGACTTTAAGACACAGTTGACCATCAGCATAC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-207(2), mmu-miR-29b-1-5p(1), mmu-miR-199b-3p(1), mmu-miR-199a-3p(1), mmu-miR-224-5p(1), mmu-miR-5101(1)
siRNAs for circular RNA silencing
Junction sequence
AGCGTCCTGATGGCTGCTGGCCTTCC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCARHGAP26_688_ORF_1
1.0851
0.364768858
0.922528174
588
ORF sequence:
ATGAAGAAGATGAAGGAAAACCCCCTGGAGCACAAGACCATCAGCCCGTACACCATGGAAGGGTACCTGTACGTGCAGGAGAAGCGTCACTTTGGAACTTCCTGGGTGAAGCACTACTGTACCTACCAACGGGATTCCAAACAAATCACCATGGTTCCATTCGACCAAAAGTCAGGAGGAAAGGGGGGAGAAGACGAGTCCGTTACCCTCAAATCCTGCACACGGCGAAAGACAGACTCCATCGAGAAGCGATTCTGCTTTGACGTGGAAGCAGTAGACAGGCCAGGGGTTATCACCATGCAGGCGTTGTCGGAAGAGGACCGTAGGCTCTGGATGGAAGCCATGGATGGCCGGGAACCTGTGTACAACTCCAACAGAGACAGCCAGAGCGAAGGGACCGCACAATTGGACAGTATCGGCTTCAGCATAATAAGGAAATGCATCCATGCGGTGGAGACCAGAGGGATCAATGAGCAGGGGCTCTACCGAATCGTGGGGGTCAACTCCAGGGTGCAGAAGTTGCTGAGCGTCCTGATGGCTGCTGGCCTTCCTGCAAGGACTCTTCACTTTCTATCACCATGGTTATGA
Peptide sequence:
MKKMKENPLEHKTISPYTMEGYLYVQEKRHFGTSWVKHYCTYQRDSKQITMVPFDQKSGGKGGEDESVTLKSCTRRKTDSIEKRFCFDVEAVDRPGVITMQALSEEDRRLWMEAMDGREPVYNSNRDSQSEGTAQLDSIGFSIIRKCIHAVETRGINEQGLYRIVGVNSRVQKLLSVLMAAGLPARTLHFLSPWL
IRESfinder result
IRESfinder score
0.330633547
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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