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mmu_circDnah9_1214
Basic information of circular RNA
PanCircBase ID:
mmu_circDnah9_1214
mm39_Chr. Position ID:
chr11|65880540|65916109|-
Gene name:
Dnah9
Transcript:
ENSMUST00000080665.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
41,40,39,38,37,36,35
Exon/intron offsets:
0,718,2989,15287,15944,27650,35421
Genomic length:
35569
Exon/intron sizes in nt:
24,01,03,16,62,08,17,40,00,000
Flanking exon/introns:
chr11:65872173-65880540|chr11:65916109-65917811
Splice length:
1214
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GGATCCTGTACATAAACCCTGCAGACCTGGGATGGAACCCTCCAGTAAGCAGCTGGATTGATCAGAGAGAAGTCCAGACTGAGAGAGCCAACTTGACCATCCTGTTTGACAAATATCTTCCTACCTGCTTGGACACCCTCAGAACCAGATTTAAGAAAATAATTCCAGTCCCAGAGCAGAGTATGATCCAGATGCTGTGCTACCTCCTTGAGTGCCTCCTGACAAAGGAGGATATCCCTGCAGACTGCCCCAAGGAAATATATGAACTCTATTTTGTGTTTGCTGCCATCTGGGCATTTGGCAGTGCTGTGATCCAAGATCAGCTTGTAGACTACCGGGCAGAGTTCAGCAAATGGTGGCTGACTGAGTTTAAAACAGTCAAGTTTCCTTCCCAAGGAACTGTCTTTGACTACTACATAGACCCAGAGACCAAGAAATTTGAGCCCTGGGCCAAGCTCATCCCCCAGTTTGAATTTGACCCAGAGATGCCTTTGCAGGCTTGTTTGGTACACACAAGTGAGACCATCCGGGTGTGCTACTTCATGGAGCGGCTCATGCAATGGAGGCGGCCGGTTATGCTGGTTGGCCCTGCAGGCTCAGGCAAGTCTGTGCTGGTGGGAGCAAAGCTGTCCAGCCTTAACCCTGAGGAATACATGGTGAAAAATGTGCCCTTCAACTACTATACTACGTCAGCAATGCTGCAAGCTGTCTTGGAGAAACCTCTAGAAAAGAAAGCTGGCAGGAATTATGGCCCTCCAGGCAACAGGAAACTCATCTATTTCATCGATGACATGAATATGCCCGAGGTGGATGCCTATGGCACAGTACAGCCCCACACTGTCATCAGGCAGCACCTAGACTATGGCCACTGGTATGATCGGAACAAGCTGTCTCTGAAGGAGATCATGAATGTACAATACATCTCCTGTATGAACCCCACTGCAGGCAGCTTTACCATCAACCCAAGGCTTCAGCGCCACTTCAGCGTGTTTGCCCTCTGCTTCCCAGGAGCTGATGCCCTCTCTTCCATCTATAGCACCATCTTGACCCATCATCTGAAGTTTGGAAACTTTCCCACCACCCTGCAGAAATCCATCCCTCCTCTGATAAACCTGGCTGTCACCTTCCATCAGAAAATTGCCACCACGTTTCTGCCCACAGCAATCAAATTTCACTACATCTTCAATCTCAGAGATTTTGCCAATATTTTCCAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AATTGCCACCACGTTTCTGC
59.97
TGGCTCTCTCAGTCTGGACT
59.59
169
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGCTGTCACCTTCCATCAGA
59.38
CAGCTGCTTACTGGAGGGTT
59.67
155
PCR template sequence:
GGCTGTCACCTTCCATCAGAAAATTGCCACCACGTTTCTGCCCACAGCAATCAAATTTCACTACATCTTCAATCTCAGAGATTTTGCCAATATTTTCCAAGGATCCTGTACATAAACCCTGCAGACCTGGGATGGAACCCTCCAGTAAGCAGCTGGATTGATCAGAGAGAAGTCCAGACTGAGAGAGCCAACTTGACCAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
18
Interacting miRNAs (#binding sites)
mmu-let-7a-5p(1), mmu-miR-181a-5p(1), mmu-miR-103-3p(1), mmu-let-7b-5p(1), mmu-let-7c-5p(1), mmu-miR-298-5p(1), mmu-miR-320-3p(1), mmu-miR-181b-5p(1), mmu-let-7d-5p(1), mmu-miR-433-3p(1), mmu-miR-324-3p(1), mmu-miR-107-3p(1), mmu-miR-98-5p(1), mmu-miR-29b-2-5p(1), mmu-miR-673-5p(1), mmu-miR-335-3p(1), mmu-miR-669d-5p(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CAATATTTTCCAAGGATCCTGTACAT
siRNA sets
ATGTACAGGATCCTTGGAA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCDNAH9_1214_ORF_1
1.0796
0.282149739
0.995578752
1047
ORF sequence:
ATGATCCAGATGCTGTGCTACCTCCTTGAGTGCCTCCTGACAAAGGAGGATATCCCTGCAGACTGCCCCAAGGAAATATATGAACTCTATTTTGTGTTTGCTGCCATCTGGGCATTTGGCAGTGCTGTGATCCAAGATCAGCTTGTAGACTACCGGGCAGAGTTCAGCAAATGGTGGCTGACTGAGTTTAAAACAGTCAAGTTTCCTTCCCAAGGAACTGTCTTTGACTACTACATAGACCCAGAGACCAAGAAATTTGAGCCCTGGGCCAAGCTCATCCCCCAGTTTGAATTTGACCCAGAGATGCCTTTGCAGGCTTGTTTGGTACACACAAGTGAGACCATCCGGGTGTGCTACTTCATGGAGCGGCTCATGCAATGGAGGCGGCCGGTTATGCTGGTTGGCCCTGCAGGCTCAGGCAAGTCTGTGCTGGTGGGAGCAAAGCTGTCCAGCCTTAACCCTGAGGAATACATGGTGAAAAATGTGCCCTTCAACTACTATACTACGTCAGCAATGCTGCAAGCTGTCTTGGAGAAACCTCTAGAAAAGAAAGCTGGCAGGAATTATGGCCCTCCAGGCAACAGGAAACTCATCTATTTCATCGATGACATGAATATGCCCGAGGTGGATGCCTATGGCACAGTACAGCCCCACACTGTCATCAGGCAGCACCTAGACTATGGCCACTGGTATGATCGGAACAAGCTGTCTCTGAAGGAGATCATGAATGTACAATACATCTCCTGTATGAACCCCACTGCAGGCAGCTTTACCATCAACCCAAGGCTTCAGCGCCACTTCAGCGTGTTTGCCCTCTGCTTCCCAGGAGCTGATGCCCTCTCTTCCATCTATAGCACCATCTTGACCCATCATCTGAAGTTTGGAAACTTTCCCACCACCCTGCAGAAATCCATCCCTCCTCTGATAAACCTGGCTGTCACCTTCCATCAGAAAATTGCCACCACGTTTCTGCCCACAGCAATCAAATTTCACTACATCTTCAATCTCAGAGATTTTGCCAATATTTTCCAAGGATCCTGTACATAA
Peptide sequence:
MIQMLCYLLECLLTKEDIPADCPKEIYELYFVFAAIWAFGSAVIQDQLVDYRAEFSKWWLTEFKTVKFPSQGTVFDYYIDPETKKFEPWAKLIPQFEFDPEMPLQACLVHTSETIRVCYFMERLMQWRRPVMLVGPAGSGKSVLVGAKLSSLNPEEYMVKNVPFNYYTTSAMLQAVLEKPLEKKAGRNYGPPGNRKLIYFIDDMNMPEVDAYGTVQPHTVIRQHLDYGHWYDRNKLSLKEIMNVQYISCMNPTAGSFTINPRLQRHFSVFALCFPGADALSSIYSTILTHHLKFGNFPTTLQKSIPPLINLAVTFHQKIATTFLPTAIKFHYIFNLRDFANIFQGSCT
IRESfinder result
IRESfinder score
0.622105472
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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