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mmu_ciArl1_100
Basic information of circular RNA
PanCircBase ID:
mmu_ciArl1_100
mm39_Chr. Position ID:
chr10|88569542|88569642|+
Gene name:
Arl1
Transcript:
ENSMUST00000170137.8
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
3
Exon/intron offsets:
0
Genomic length:
100
Exon/intron sizes in nt:
100
Flanking exon/introns:
chr10:88569542-88571759
Splice length:
100
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGTATTGGTTTAATAACACTTTTCATGTTTCTATCTAATACAGCTTTCTGAATAAACGAGTCATATGATGGGGGTTTGTAAACTTCTACTATGGAAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACGAGTCATATGATGGGGGT
57.9
AGAAACATGAAAAGTGTTATTAAACCA
56.68
77
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACGAGTCATATGATGGGGGT
57.9
GAAACATGAAAAGTGTTATTAAACCA
55.46
76
PCR template sequence:
CTGAATAAACGAGTCATATGATGGGGGTTTGTAAACTTCTACTATGGAAAGTAAGTATTGGTTTAATAACACTTTTCATGTTTCTATCTAATACAGCTTT
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-320-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TCTACTATGGAAAGTAAGTATTGGTT
siRNA sets
AACCAATACTTACTTTCCA,AATACTTACTTTCCATAGT,CAATACTTACTTTCCATAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIARL1_100_ORF_1
0.9233
-0.590994069
0.004872556
87
ORF sequence:
ATGATGGGGGTTTGTAAACTTCTACTATGGAAAGTAAGTATTGGTTTAATAACACTTTTCATGTTTCTATCTAATACAGCTTTCTGA
Peptide sequence:
MMGVCKLLLWKVSIGLITLFMFLSNTAF
IRESfinder result
IRESfinder score
0.878186699
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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