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mmu_circDync2h1_717
Basic information of circular RNA
PanCircBase ID:
mmu_circDync2h1_717
mm39_Chr. Position ID:
chr9|6967079|6996939|-
Gene name:
Dync2h1
Transcript:
ENSMUST00000048417.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
84,83,82,81,80
Exon/intron offsets:
0,16310,25444,26858,29784
Genomic length:
29860
Exon/intron sizes in nt:
210,117,105,209,76
Flanking exon/introns:
chr9:6955996-6967079|chr9:6996939-7001340
Splice length:
717
Other database IDs:
circBase: mmu_circ_0015834, CIRCpedia: MMU_CIRCpedia_27238, circAtlas: mmu-Dync2h1_0004
Human Ortholog IDs:
Mature spliced Sequence:
GGTTGGACCAAGTTTTATGAGTTTTCCTTATCAGATCTTCGGGCCGGGTACCATGTCATTGACAGGCTCTTCGATGGTACCAAAGATGTACAGTGGGAATTTGTACACGGCTTACTTGAAAATTCTATTTATGGAGGACGTGTAGATAACTATTTTGATCTTAGAGTTCTTCAGTCCTACTTGAAGCAGTTTTTTAATTCTTCAATAATTGATGTACTAAACCAAAGGAACAAGAAAAGCATTTTTCCATATTCCATCTCTCTCCCAAACTCGTGCAGCATTTTGGACTACCGTGCTGTCATCGAGAAGCTCCCCGAGGACGATAAGCCCAGCTTCTTCGGTCTGCCCGCCAACATTGCCCGCTCCTCTCAGCGCATGATCAGCTCTCAGGTCATCTCCCAGCTCAGGATCTTGGGAAGATCGGTCACAGCCGGTTGCAAATTTGACAGAGAAATCTGGTCTAATGAACTTTCTCCAGTTCTGAATCTTTGGAAAAAGCTGAACCAGAATTCAAACCTAATTCATCAAAAAGTATCACCACCTAATGATCGACAAGGATCTCCAATATTATCGTTCATCATTCTTGAGCAGTTCAATGCCATCCGCTTGGTACAAAGTGTTCATCAGTCGCTTGCTGCCCTCAGCAAAGTCATCAGGGGAACTACTTTACTGAGTTCAGAAGTACAAAAGCTGGCAAGTGCTTTATTAAACCAGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GTTCATCAGTCGCTTGCTGC
60.18
TCAATGACATGGTACCCGGC
60.11
161
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GTTCATCAGTCGCTTGCTGC
60.18
CCGGCCCGAAGATCTGATAA
59.32
146
PCR template sequence:
TGTTCATCAGTCGCTTGCTGCCCTCAGCAAAGTCATCAGGGGAACTACTTTACTGAGTTCAGAAGTACAAAAGCTGGCAAGTGCTTTATTAAACCAGAAGGGTTGGACCAAGTTTTATGAGTTTTCCTTATCAGATCTTCGGGCCGGGTACCATGTCATTGACAGGCTCTTCGATGGTACCAAAGATGTACAGTGGGAAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
9
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-29b-1-5p(1), mmu-miR-362-5p(1), mmu-miR-666-5p(1), mmu-miR-27a-5p(1), mmu-miR-542-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ATTAAACCAGAAGGGTTGGACCAAGT
siRNA sets
CTTGGTCCAACCCTTCTGG, TTGGTCCAACCCTTCTGGT, ACTTGGTCCAACCCTTCTG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCDYNC2H1_717_ORF_1
0.6579
0.082927056
0.980695981
1059
ORF sequence:
ATGATCAGCTCTCAGGTCATCTCCCAGCTCAGGATCTTGGGAAGATCGGTCACAGCCGGTTGCAAATTTGACAGAGAAATCTGGTCTAATGAACTTTCTCCAGTTCTGAATCTTTGGAAAAAGCTGAACCAGAATTCAAACCTAATTCATCAAAAAGTATCACCACCTAATGATCGACAAGGATCTCCAATATTATCGTTCATCATTCTTGAGCAGTTCAATGCCATCCGCTTGGTACAAAGTGTTCATCAGTCGCTTGCTGCCCTCAGCAAAGTCATCAGGGGAACTACTTTACTGAGTTCAGAAGTACAAAAGCTGGCAAGTGCTTTATTAAACCAGAAGGGTTGGACCAAGTTTTATGAGTTTTCCTTATCAGATCTTCGGGCCGGGTACCATGTCATTGACAGGCTCTTCGATGGTACCAAAGATGTACAGTGGGAATTTGTACACGGCTTACTTGAAAATTCTATTTATGGAGGACGTGTAGATAACTATTTTGATCTTAGAGTTCTTCAGTCCTACTTGAAGCAGTTTTTTAATTCTTCAATAATTGATGTACTAAACCAAAGGAACAAGAAAAGCATTTTTCCATATTCCATCTCTCTCCCAAACTCGTGCAGCATTTTGGACTACCGTGCTGTCATCGAGAAGCTCCCCGAGGACGATAAGCCCAGCTTCTTCGGTCTGCCCGCCAACATTGCCCGCTCCTCTCAGCGCATGATCAGCTCTCAGGTCATCTCCCAGCTCAGGATCTTGGGAAGATCGGTCACAGCCGGTTGCAAATTTGACAGAGAAATCTGGTCTAATGAACTTTCTCCAGTTCTGAATCTTTGGAAAAAGCTGAACCAGAATTCAAACCTAATTCATCAAAAAGTATCACCACCTAATGATCGACAAGGATCTCCAATATTATCGTTCATCATTCTTGAGCAGTTCAATGCCATCCGCTTGGTACAAAGTGTTCATCAGTCGCTTGCTGCCCTCAGCAAAGTCATCAGGGGAACTACTTTACTGAGTTCAGAAGTACAAAAGCTGGCAAGTGCTTTATTAAACCAGAAG
Peptide sequence:
MISSQVISQLRILGRSVTAGCKFDREIWSNELSPVLNLWKKLNQNSNLIHQKVSPPNDRQGSPILSFIILEQFNAIRLVQSVHQSLAALSKVIRGTTLLSSEVQKLASALLNQKGWTKFYEFSLSDLRAGYHVIDRLFDGTKDVQWEFVHGLLENSIYGGRVDNYFDLRVLQSYLKQFFNSSIIDVLNQRNKKSIFPYSISLPNSCSILDYRAVIEKLPEDDKPSFFGLPANIARSSQRMISSQVISQLRILGRSVTAGCKFDREIWSNELSPVLNLWKKLNQNSNLIHQKVSPPNDRQGSPILSFIILEQFNAIRLVQSVHQSLAALSKVIRGTTLLSSEVQKLASALLNQK
IRESfinder result
IRESfinder score
0.784816823
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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