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mmu_circDnah9_1148
Basic information of circular RNA
PanCircBase ID:
mmu_circDnah9_1148
mm39_Chr. Position ID:
chr11|65761745|65796227|-
Gene name:
Dnah9
Transcript:
ENSMUST00000080665.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
61,60,59,58,57,56,55
Exon/intron offsets:
0,3203,9241,10708,15695,24921,34277
Genomic length:
34482
Exon/intron sizes in nt:
14,91,94,12,31,71,14,10,00,000
Flanking exon/introns:
chr11:65750360-65761745|chr11:65796227-65797665
Splice length:
1148
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTTTATCAAGATTGGAGACAAGGAGTGTGAATTCAATCCCAAGTTCCGGCTCATCCTTCATACCAAGCTGGCCAACCCTCACTACCAGCCTGAGCTGCAGGCTCAGGCTACCCTGATCAACTTCACGGTGACCAGGGATGGCCTGGAGGACCAGCTGCTGGCTGCTGTGGTCAGCATGGAGAGACCAGACCTGGAACAGCTGAAGTCCGATCTCACAAAGCAGCAGAACGGGTTCAAAATCACCCTCAAAACCTTAGAGGACAACCTGCTATCTCGCCTCTCTTCAGCCTCGGGGAACTTCCTGGGAGAAACAGCCTTGGTGGAGAACCTGGAGGTCACCAAGCAGACTGCTGCAGATGTGGAGGAAAAGGTCCAAGAAGCCAAATTGACAGAAGTAAAAATTAATGAGGCCCGAGAGCACTATAGGCCAGCAGCTGCCCGGGCATCTCTGCTCTACTTCATCATGAATGACCTCAGCAAGATCCATCCAATGTATCAGTTCTCCCTCAAGGCCTTCAGCATTGTCTTCCAGAAAGCTGTGGAGAAGGCAGCTCCCAGTGAAAGTGTCACAGAGCGAGTGACTAATCTAATAGACAGCATAACTTTCTCAGTGTACCAGTATACCACACGTGGCCTCTTTGAGTGTGATAAGCTGACCTACCTAGCCCAGCTCACCTTTCAGATTCTCCTCGTGAACCAGGAAGTTAATGCAGCAGAGTTGGATTTCTTGCTTAGGGCTCCAGTACAGACAGGGACTCCCAGCCCAATGGAGTTCCTGTCCCACCAGGCCTGGGGAGGCATCAAGGCACTCTCATCAATGGAGGAATTCTGCAATCTGGACCGAGACATTGAAGGCTCTGCCAAGAGCTGGAAAAAGTTTGTGGAGTCAGAGTGTCCCGAGAAGGAGAAGTTTCCCCAGGAGTGGAAGAACAAGACAGCCCTGCAGCGCCTCTGCATGATGAGAGCCATGAGGCCTGACCGGATGACCTATGCCATGCGAGATTTTGTTGAGGAGAAGTTGGGAAGCAAATACGTGATGGGAAGAGCACTCGATTTTGTAACCTCATTTGAAGAGTCAGGACCAGCCACTCCCATGTTTTTCATCCTGTCTCCAGGGGTGGATCCACTGAAGGATGTGGAAAATCAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GAAGAGTCAGGACCAGCCAC
60.04
TGGCCAGCTTGGTATGAAGG
60.03
153
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GAAGAGTCAGGACCAGCCAC
60.04
CAGGCTGGTAGTGAGGGTTG
60.04
171
PCR template sequence:
CTCGATTTTGTAACCTCATTTGAAGAGTCAGGACCAGCCACTCCCATGTTTTTCATCCTGTCTCCAGGGGTGGATCCACTGAAGGATGTGGAAAATCAAGGTTTATCAAGATTGGAGACAAGGAGTGTGAATTCAATCCCAAGTTCCGGCTCATCCTTCATACCAAGCTGGCCAACCCTCACTACCAGCCTGAGCTGCAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
20
Interacting miRNAs (#binding sites)
mmu-let-7a-5p(1), mmu-let-7e-5p(1), mmu-let-7b-5p(1), mmu-miR-223-3p(1), mmu-let-7c-5p(1), mmu-miR-146a-5p(1), mmu-miR-298-5p(1), mmu-miR-339-5p(1), mmu-let-7d-5p(1), mmu-miR-199b-3p(1), mmu-miR-483-5p(1), mmu-miR-199a-3p(1), mmu-miR-98-5p(1), mmu-miR-466a-5p(1), mmu-miR-466p-5p(1), mmu-miR-207(1), mmu-miR-3065-5p(1), mmu-miR-697(1), mmu-miR-1904(1), mmu-miR-146b-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GTGGAAAATCAAGGTTTATCAAGATT
siRNA sets
ATAAACCTTGATTTTCCAC, TGATAAACCTTGATTTTCC, GATAAACCTTGATTTTCCA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCDNAH9_1148_ORF_1
1.0938
0.308791984
0.997152344
1089
ORF sequence:
ATGGAGAGACCAGACCTGGAACAGCTGAAGTCCGATCTCACAAAGCAGCAGAACGGGTTCAAAATCACCCTCAAAACCTTAGAGGACAACCTGCTATCTCGCCTCTCTTCAGCCTCGGGGAACTTCCTGGGAGAAACAGCCTTGGTGGAGAACCTGGAGGTCACCAAGCAGACTGCTGCAGATGTGGAGGAAAAGGTCCAAGAAGCCAAATTGACAGAAGTAAAAATTAATGAGGCCCGAGAGCACTATAGGCCAGCAGCTGCCCGGGCATCTCTGCTCTACTTCATCATGAATGACCTCAGCAAGATCCATCCAATGTATCAGTTCTCCCTCAAGGCCTTCAGCATTGTCTTCCAGAAAGCTGTGGAGAAGGCAGCTCCCAGTGAAAGTGTCACAGAGCGAGTGACTAATCTAATAGACAGCATAACTTTCTCAGTGTACCAGTATACCACACGTGGCCTCTTTGAGTGTGATAAGCTGACCTACCTAGCCCAGCTCACCTTTCAGATTCTCCTCGTGAACCAGGAAGTTAATGCAGCAGAGTTGGATTTCTTGCTTAGGGCTCCAGTACAGACAGGGACTCCCAGCCCAATGGAGTTCCTGTCCCACCAGGCCTGGGGAGGCATCAAGGCACTCTCATCAATGGAGGAATTCTGCAATCTGGACCGAGACATTGAAGGCTCTGCCAAGAGCTGGAAAAAGTTTGTGGAGTCAGAGTGTCCCGAGAAGGAGAAGTTTCCCCAGGAGTGGAAGAACAAGACAGCCCTGCAGCGCCTCTGCATGATGAGAGCCATGAGGCCTGACCGGATGACCTATGCCATGCGAGATTTTGTTGAGGAGAAGTTGGGAAGCAAATACGTGATGGGAAGAGCACTCGATTTTGTAACCTCATTTGAAGAGTCAGGACCAGCCACTCCCATGTTTTTCATCCTGTCTCCAGGGGTGGATCCACTGAAGGATGTGGAAAATCAAGGTTTATCAAGATTGGAGACAAGGAGTGTGAATTCAATCCCAAGTTCCGGCTCATCCTTCATACCAAGCTGGCCAACCCTCACTACCAGCCTGAGCTGCAGGCTCAGGCTACCCTGA
Peptide sequence:
MERPDLEQLKSDLTKQQNGFKITLKTLEDNLLSRLSSASGNFLGETALVENLEVTKQTAADVEEKVQEAKLTEVKINEAREHYRPAAARASLLYFIMNDLSKIHPMYQFSLKAFSIVFQKAVEKAAPSESVTERVTNLIDSITFSVYQYTTRGLFECDKLTYLAQLTFQILLVNQEVNAAELDFLLRAPVQTGTPSPMEFLSHQAWGGIKALSSMEEFCNLDRDIEGSAKSWKKFVESECPEKEKFPQEWKNKTALQRLCMMRAMRPDRMTYAMRDFVEEKLGSKYVMGRALDFVTSFEESGPATPMFFILSPGVDPLKDVENQGLSRLETRSVNSIPSSGSSFIPSWPTLTTSLSCRLRLP
IRESfinder result
IRESfinder score
0.562595712
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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