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mmu_circDnah9_511
Basic information of circular RNA
PanCircBase ID:
mmu_circDnah9_511
mm39_Chr. Position ID:
chr11|65777440|65796227|-
Gene name:
Dnah9
Transcript:
ENSMUST00000080665.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
57,56,55
Exon/intron offsets:
0,9226,18582
Genomic length:
18787
Exon/intron sizes in nt:
14,11,65,205
Flanking exon/introns:
chr11:65772624-65777440|chr11:65796227-65797665
Splice length:
511
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTTTATCAAGATTGGAGACAAGGAGTGTGAATTCAATCCCAAGTTCCGGCTCATCCTTCATACCAAGCTGGCCAACCCTCACTACCAGCCTGAGCTGCAGGCTCAGGCTACCCTGATCAACTTCACGGTGACCAGGGATGGCCTGGAGGACCAGCTGCTGGCTGCTGTGGTCAGCATGGAGAGACCAGACCTGGAACAGCTGAAGTCCGATCTCACAAAGCAGCAGAACGGGTTCAAAATCACCCTCAAAACCTTAGAGGACAACCTGCTATCTCGCCTCTCTTCAGCCTCGGGGAACTTCCTGGGAGAAACAGCCTTGGTGGAGAACCTGGAGGTCACCAAGCAGACTGCTGCAGATGTGGAGGAAAAGGTCCAAGAAGCCAAATTGACAGAAGTAAAAATTAATGAGGCCCGAGAGCACTATAGGCCAGCAGCTGCCCGGGCATCTCTGCTCTACTTCATCATGAATGACCTCAGCAAGATCCATCCAATGTATCAGTTCTCCCTCAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CGAGAGCACTATAGGCCAGC
60.04
TGGCCAGCTTGGTATGAAGG
60.03
173
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CGAGAGCACTATAGGCCAGC
60.04
AAGGATGAGCCGGAACTTGG
60.04
157
PCR template sequence:
CCGAGAGCACTATAGGCCAGCAGCTGCCCGGGCATCTCTGCTCTACTTCATCATGAATGACCTCAGCAAGATCCATCCAATGTATCAGTTCTCCCTCAAGGTTTATCAAGATTGGAGACAAGGAGTGTGAATTCAATCCCAAGTTCCGGCTCATCCTTCATACCAAGCTGGCCAACCCTCACTACCAGCCTGAGCTGCAG
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-let-7a-5p(1), mmu-let-7e-5p(1), mmu-let-7b-5p(1), mmu-let-7c-5p(1), mmu-miR-146a-5p(1), mmu-let-7d-5p(1), mmu-miR-199b-3p(1), mmu-miR-199a-3p(1), mmu-miR-98-5p(1), mmu-miR-1904(1), mmu-miR-146b-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GTTCTCCCTCAAGGTTTATCAAGATT
siRNA sets
AATCTTGATAAACCTTGAG, TTGATAAACCTTGAGGGAG, TGATAAACCTTGAGGGAGA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCDNAH9_511_ORF_1
1.2787
0.462823872
0.952946747
555
ORF sequence:
ATGACCTCAGCAAGATCCATCCAATGTATCAGTTCTCCCTCAAGGTTTATCAAGATTGGAGACAAGGAGTGTGAATTCAATCCCAAGTTCCGGCTCATCCTTCATACCAAGCTGGCCAACCCTCACTACCAGCCTGAGCTGCAGGCTCAGGCTACCCTGATCAACTTCACGGTGACCAGGGATGGCCTGGAGGACCAGCTGCTGGCTGCTGTGGTCAGCATGGAGAGACCAGACCTGGAACAGCTGAAGTCCGATCTCACAAAGCAGCAGAACGGGTTCAAAATCACCCTCAAAACCTTAGAGGACAACCTGCTATCTCGCCTCTCTTCAGCCTCGGGGAACTTCCTGGGAGAAACAGCCTTGGTGGAGAACCTGGAGGTCACCAAGCAGACTGCTGCAGATGTGGAGGAAAAGGTCCAAGAAGCCAAATTGACAGAAGTAAAAATTAATGAGGCCCGAGAGCACTATAGGCCAGCAGCTGCCCGGGCATCTCTGCTCTACTTCATCATGAATGACCTCAGCAAGATCCATCCAATGTATCAGTTCTCCCTCAAG
Peptide sequence:
MTSARSIQCISSPSRFIKIGDKECEFNPKFRLILHTKLANPHYQPELQAQATLINFTVTRDGLEDQLLAAVVSMERPDLEQLKSDLTKQQNGFKITLKTLEDNLLSRLSSASGNFLGETALVENLEVTKQTAADVEEKVQEAKLTEVKINEAREHYRPAAARASLLYFIMNDLSKIHPMYQFSLK
IRESfinder result
IRESfinder score
0.542982181
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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