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mmu_circRian_668
Basic information of circular RNA
PanCircBase ID:
mmu_circRian_668
mm39_Chr. Position ID:
chr12|109586746|109611765|+
Gene name:
Rian
Transcript:
ENSMUST00000238694.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
9
Exon/intron indexes:
5,6,7,8,9,10,11,12,13
Exon/intron offsets:
0,4788,6735,15081,17526,19954,22252,23101,24949
Genomic length:
25019
Exon/intron sizes in nt:
88,75,85,64,88,62,88,48,70
Flanking exon/introns:
chr12:109573930-109586746|chr12:109611765-109612280
Splice length:
668
Other database IDs:
circAtlas: mmu-Rian_0049
Human Ortholog IDs:
Mature spliced Sequence:
AATGGAGGCCCTAATGTGAATGGAGACTAGCCTGCTGGTAGAGACCTTGGCAGTGACCGCTGTGGGCAATGAGCCATGGGCCAACAATATTCAATGCTGTGTACCTGATGGATGGTTACTGTCTGAGACTGAGGCTTTTTGGGCCAGGAGTAAAAGGACTTGGTTTGTACTTGATTGCGTCCTGTGGATGCTTGCCTACCAACTGACTCATCCTGACGTGCCAAAGGTCCTGGCTTTCCCCTGTGTGGGACCCCTGATTTAATTATTTACTGTGGAACCATTGTCCTGAGTCAGGAGGATAGATGAGGAAAGAATGAGAGCGTGGCTGGCATCGCTTCATGATTACATTCTGGGAAAGATCTTGCCTGTTAACCTCTAGAGAAGGAGGGACGATACAGACAATGAAGACTATAGCAGACTGAATTACTCTCTGAGATGAGGACTTTGCTATTGCCATTGCAGAACCACTGGTGGAAGTTGTTGTTAAACAGTGGGTCTTGCATGCAAGCTCTACAGTTATGCACAGTATTTCCATGACATCCCAAGCCATGAGGTTCATGCTGCCATATCCCCCTGTTTAACAAGTGTGGAAACTGATAATGGACTCACAATTGCTGATGTATAGGTTCTAATGTTTTCTATTGTGGACACGGGACACCCAGACTGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCCCCCTGTTTAACAAGTGTGG
60.42
TACCAGCAGGCTAGTCTCCA
59.66
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCCCCTGTTTAACAAGTGTGG
59.04
CTACCAGCAGGCTAGTCTCC
58.96
140
PCR template sequence:
TCCCCCTGTTTAACAAGTGTGGAAACTGATAATGGACTCACAATTGCTGATGTATAGGTTCTAATGTTTTCTATTGTGGACACGGGACACCCAGACTGAGAATGGAGGCCCTAATGTGAATGGAGACTAGCCTGCTGGTAGAGACCTTGGCAGTGACCGCTGTGGGCAATGAGCCATGGGCCAACAATATTCAATGCTGT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
15
Interacting miRNAs (#binding sites)
mmu-miR-140-5p(1), mmu-miR-429-3p(1), mmu-miR-103-3p(1), mmu-miR-223-3p(1), mmu-miR-31-5p(1), mmu-miR-26a-5p(1), mmu-miR-136-5p(1), mmu-miR-182-5p(1), mmu-miR-107-3p(1), mmu-miR-29b-2-5p(1), mmu-miR-802-5p(1), mmu-miR-300-3p(1), mmu-miR-188-3p(1), mmu-miR-193b-3p(1), mmu-miR-544-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CACCCAGACTGAGAATGGAGGCCCTA
siRNA sets
TAGGGCCTCCATTCTCAGT,AGGGCCTCCATTCTCAGTC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.680773809
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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