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mmu_circDync2h1_431
Basic information of circular RNA
PanCircBase ID:
mmu_circDync2h1_431
mm39_Chr. Position ID:
chr9|6983389|6994146|-
Gene name:
Dync2h1
Transcript:
ENSMUST00000048417.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
83,82,81
Exon/intron offsets:
0,9134,10548
Genomic length:
10757
Exon/intron sizes in nt:
117,105,209
Flanking exon/introns:
chr9:6967289-6983389|chr9:6994146-6996863
Splice length:
431
Other database IDs:
CIRCpedia: MMU_CIRCpedia_37866, circAtlas: mmu-Dync2h1_0032
Human Ortholog IDs:
Mature spliced Sequence:
GTACCAAAGATGTACAGTGGGAATTTGTACACGGCTTACTTGAAAATTCTATTTATGGAGGACGTGTAGATAACTATTTTGATCTTAGAGTTCTTCAGTCCTACTTGAAGCAGTTTTTTAATTCTTCAATAATTGATGTACTAAACCAAAGGAACAAGAAAAGCATTTTTCCATATTCCATCTCTCTCCCAAACTCGTGCAGCATTTTGGACTACCGTGCTGTCATCGAGAAGCTCCCCGAGGACGATAAGCCCAGCTTCTTCGGTCTGCCCGCCAACATTGCCCGCTCCTCTCAGCGCATGATCAGCTCTCAGGTCATCTCCCAGCTCAGGATCTTGGGAAGATCGGTCACAGCCGGTTGCAAATTTGACAGAGAAATCTGGTCTAATGAACTTTCTCCAGTTCTGAATCTTTGGAAAAAGCTGAACCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GTCACAGCCGGTTGCAAATT
59.97
AGTTATCTACACGTCCTCCA
55
159
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TTGGGAAGATCGGTCACAGC
60.04
AGTTATCTACACGTCCTCCA
55
171
PCR template sequence:
GATCTTGGGAAGATCGGTCACAGCCGGTTGCAAATTTGACAGAGAAATCTGGTCTAATGAACTTTCTCCAGTTCTGAATCTTTGGAAAAAGCTGAACCAGGTACCAAAGATGTACAGTGGGAATTTGTACACGGCTTACTTGAAAATTCTATTTATGGAGGACGTGTAGATAACTATTTTGATCTTAGAGTTCTTCAGTC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
7
Interacting miRNAs (#binding sites)
mmu-miR-26b-5p(2), mmu-miR-9-5p(1), mmu-miR-26a-5p(1), mmu-miR-185-5p(1), mmu-miR-666-5p(1), mmu-miR-27a-5p(1), mmu-miR-542-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AAAGCTGAACCAGGTACCAAAGATGT
siRNA sets
CTTTGGTACCTGGTTCAGC, ATCTTTGGTACCTGGTTCA, TTTGGTACCTGGTTCAGCT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCDYNC2H1_431_ORF_1
1.0841
0.065153304
0.177942807
201
ORF sequence:
ATGATCAGCTCTCAGGTCATCTCCCAGCTCAGGATCTTGGGAAGATCGGTCACAGCCGGTTGCAAATTTGACAGAGAAATCTGGTCTAATGAACTTTCTCCAGTTCTGAATCTTTGGAAAAAGCTGAACCAGGTACCAAAGATGTACAGTGGGAATTTGTACACGGCTTACTTGAAAATTCTATTTATGGAGGACGTGTAG
Peptide sequence:
MISSQVISQLRILGRSVTAGCKFDREIWSNELSPVLNLWKKLNQVPKMYSGNLYTAYLKILFMEDV
IRESfinder result
IRESfinder score
0.795299667
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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