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mmu_circDnah9_891
Basic information of circular RNA
PanCircBase ID:
mmu_circDnah9_891
mm39_Chr. Position ID:
chr11|65880540|65896658|-
Gene name:
Dnah9
Transcript:
ENSMUST00000080665.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
41,40,39,38,37
Exon/intron offsets:
0,718,2989,15287,15944
Genomic length:
16118
Exon/intron sizes in nt:
24,01,03,16,62,08,174
Flanking exon/introns:
chr11:65872173-65880540|chr11:65896658-65908190
Splice length:
891
Other database IDs:
CIRCpedia: MMU_CIRCpedia_26383, circAtlas: mmu-Dnah9_0011
Human Ortholog IDs:
Mature spliced Sequence:
CTTGTAGACTACCGGGCAGAGTTCAGCAAATGGTGGCTGACTGAGTTTAAAACAGTCAAGTTTCCTTCCCAAGGAACTGTCTTTGACTACTACATAGACCCAGAGACCAAGAAATTTGAGCCCTGGGCCAAGCTCATCCCCCAGTTTGAATTTGACCCAGAGATGCCTTTGCAGGCTTGTTTGGTACACACAAGTGAGACCATCCGGGTGTGCTACTTCATGGAGCGGCTCATGCAATGGAGGCGGCCGGTTATGCTGGTTGGCCCTGCAGGCTCAGGCAAGTCTGTGCTGGTGGGAGCAAAGCTGTCCAGCCTTAACCCTGAGGAATACATGGTGAAAAATGTGCCCTTCAACTACTATACTACGTCAGCAATGCTGCAAGCTGTCTTGGAGAAACCTCTAGAAAAGAAAGCTGGCAGGAATTATGGCCCTCCAGGCAACAGGAAACTCATCTATTTCATCGATGACATGAATATGCCCGAGGTGGATGCCTATGGCACAGTACAGCCCCACACTGTCATCAGGCAGCACCTAGACTATGGCCACTGGTATGATCGGAACAAGCTGTCTCTGAAGGAGATCATGAATGTACAATACATCTCCTGTATGAACCCCACTGCAGGCAGCTTTACCATCAACCCAAGGCTTCAGCGCCACTTCAGCGTGTTTGCCCTCTGCTTCCCAGGAGCTGATGCCCTCTCTTCCATCTATAGCACCATCTTGACCCATCATCTGAAGTTTGGAAACTTTCCCACCACCCTGCAGAAATCCATCCCTCCTCTGATAAACCTGGCTGTCACCTTCCATCAGAAAATTGCCACCACGTTTCTGCCCACAGCAATCAAATTTCACTACATCTTCAATCTCAGAGATTTTGCCAATATTTTCCAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGCTGTCACCTTCCATCAGA
59.38
TCAGTCAGCCACCATTTGCT
59.89
144
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGCTGTCACCTTCCATCAGAA
60
TCAGTCAGCCACCATTTGCT
59.89
144
PCR template sequence:
GGCTGTCACCTTCCATCAGAAAATTGCCACCACGTTTCTGCCCACAGCAATCAAATTTCACTACATCTTCAATCTCAGAGATTTTGCCAATATTTTCCAACTTGTAGACTACCGGGCAGAGTTCAGCAAATGGTGGCTGACTGAGTTTAAAACAGTCAAGTTTCCTTCCCAAGGAACTGTCTTTGACTACTACATAGACC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
11
Interacting miRNAs (#binding sites)
mmu-miR-181a-5p(1), mmu-miR-103-3p(1), mmu-miR-298-5p(1), mmu-miR-320-3p(1), mmu-miR-181b-5p(1), mmu-miR-433-3p(1), mmu-miR-107-3p(1), mmu-miR-29b-2-5p(1), mmu-miR-335-3p(1), mmu-miR-669d-5p(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CAATATTTTCCAACTTGTAGACTACC
siRNA sets
TACAAGTTGGAAAATATTG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCDNAH9_891_ORF_1
1.1719
0.297116864
0.99994454
1620
ORF sequence:
ATGCCTTTGCAGGCTTGTTTGGTACACACAAGTGAGACCATCCGGGTGTGCTACTTCATGGAGCGGCTCATGCAATGGAGGCGGCCGGTTATGCTGGTTGGCCCTGCAGGCTCAGGCAAGTCTGTGCTGGTGGGAGCAAAGCTGTCCAGCCTTAACCCTGAGGAATACATGGTGAAAAATGTGCCCTTCAACTACTATACTACGTCAGCAATGCTGCAAGCTGTCTTGGAGAAACCTCTAGAAAAGAAAGCTGGCAGGAATTATGGCCCTCCAGGCAACAGGAAACTCATCTATTTCATCGATGACATGAATATGCCCGAGGTGGATGCCTATGGCACAGTACAGCCCCACACTGTCATCAGGCAGCACCTAGACTATGGCCACTGGTATGATCGGAACAAGCTGTCTCTGAAGGAGATCATGAATGTACAATACATCTCCTGTATGAACCCCACTGCAGGCAGCTTTACCATCAACCCAAGGCTTCAGCGCCACTTCAGCGTGTTTGCCCTCTGCTTCCCAGGAGCTGATGCCCTCTCTTCCATCTATAGCACCATCTTGACCCATCATCTGAAGTTTGGAAACTTTCCCACCACCCTGCAGAAATCCATCCCTCCTCTGATAAACCTGGCTGTCACCTTCCATCAGAAAATTGCCACCACGTTTCTGCCCACAGCAATCAAATTTCACTACATCTTCAATCTCAGAGATTTTGCCAATATTTTCCAACTTGTAGACTACCGGGCAGAGTTCAGCAAATGGTGGCTGACTGAGTTTAAAACAGTCAAGTTTCCTTCCCAAGGAACTGTCTTTGACTACTACATAGACCCAGAGACCAAGAAATTTGAGCCCTGGGCCAAGCTCATCCCCCAGTTTGAATTTGACCCAGAGATGCCTTTGCAGGCTTGTTTGGTACACACAAGTGAGACCATCCGGGTGTGCTACTTCATGGAGCGGCTCATGCAATGGAGGCGGCCGGTTATGCTGGTTGGCCCTGCAGGCTCAGGCAAGTCTGTGCTGGTGGGAGCAAAGCTGTCCAGCCTTAACCCTGAGGAATACATGGTGAAAAATGTGCCCTTCAACTACTATACTACGTCAGCAATGCTGCAAGCTGTCTTGGAGAAACCTCTAGAAAAGAAAGCTGGCAGGAATTATGGCCCTCCAGGCAACAGGAAACTCATCTATTTCATCGATGACATGAATATGCCCGAGGTGGATGCCTATGGCACAGTACAGCCCCACACTGTCATCAGGCAGCACCTAGACTATGGCCACTGGTATGATCGGAACAAGCTGTCTCTGAAGGAGATCATGAATGTACAATACATCTCCTGTATGAACCCCACTGCAGGCAGCTTTACCATCAACCCAAGGCTTCAGCGCCACTTCAGCGTGTTTGCCCTCTGCTTCCCAGGAGCTGATGCCCTCTCTTCCATCTATAGCACCATCTTGACCCATCATCTGAAGTTTGGAAACTTTCCCACCACCCTGCAGAAATCCATCCCTCCTCTGATAAACCTGGCTGTCACCTTCCATCAGAAAATTGCCACCACGTTTCTGCCCACAGCAATCAAATTTCACTACATCTTCAATCTCAGAGATTTTGCCAATATTTTCCAA
Peptide sequence:
MPLQACLVHTSETIRVCYFMERLMQWRRPVMLVGPAGSGKSVLVGAKLSSLNPEEYMVKNVPFNYYTTSAMLQAVLEKPLEKKAGRNYGPPGNRKLIYFIDDMNMPEVDAYGTVQPHTVIRQHLDYGHWYDRNKLSLKEIMNVQYISCMNPTAGSFTINPRLQRHFSVFALCFPGADALSSIYSTILTHHLKFGNFPTTLQKSIPPLINLAVTFHQKIATTFLPTAIKFHYIFNLRDFANIFQLVDYRAEFSKWWLTEFKTVKFPSQGTVFDYYIDPETKKFEPWAKLIPQFEFDPEMPLQACLVHTSETIRVCYFMERLMQWRRPVMLVGPAGSGKSVLVGAKLSSLNPEEYMVKNVPFNYYTTSAMLQAVLEKPLEKKAGRNYGPPGNRKLIYFIDDMNMPEVDAYGTVQPHTVIRQHLDYGHWYDRNKLSLKEIMNVQYISCMNPTAGSFTINPRLQRHFSVFALCFPGADALSSIYSTILTHHLKFGNFPTTLQKSIPPLINLAVTFHQKIATTFLPTAIKFHYIFNLRDFANIFQ
IRESfinder result
IRESfinder score
0.542349449
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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