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mmu_circBbs9_771
Basic information of circular RNA
PanCircBase ID:
mmu_circBbs9_771
mm39_Chr. Position ID:
chr9|22555040|22590360|+
Gene name:
Bbs9
Transcript:
ENSMUST00000039798.16
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
13,14,15,16,17,18
Exon/intron offsets:
0,2219,11480,15305,27040,35167
Genomic length:
35320
Exon/intron sizes in nt:
103,105,141,96,173,153
Flanking exon/introns:
chr9:22550079-22555040|chr9:22590360-22705046
Splice length:
771
Other database IDs:
circBase: mmu_circ_0001755, CIRCpedia: MMU_CIRCpedia_13587, circAtlas: mmu-Bbs9_0015
circBase: hsa_circ_0079812, circAtlas: hsa-BBS9_0020, CIRCpedia: HSA_CIRCpedia_57932
Human Ortholog IDs:
Mature spliced Sequence:
ATTACCCTGCAGAACCGAGTGGTGTTGCAGAAGGTCAAGCTGTCTATCTATGTGCAGCCTCCACTACAGTTGACTTGTGATCAGTTCACCTTTGACTTCACGGTTCCAGATATGACGAGTTCAGTAGCGTTTTCTGTGTACCTGAAGAGAAACTACACACCATCCGAGTTAGAAGGAAATGCTGTTGTTTCTTACTCCAGACCGACAGGTATTCCTCGGGTTGTCCAATGTAAATTTAGACTTCCTCTGAAACTGATTTGCCTACCTGGTCAGCCTTCAAAAACTGCAAGCCACAAACTAACTATAGACACCAACAAATCTCCTGTCAGTCTGCTCGGTCTCTTCCCAGACTTTGCCAACCCATCAGATGACGACCAAGTGAATGTAATGGGCTTCCGTCTCCTAGGAGGCGCTCGAGTGACTCTTCTTGCTTCCAGAACATCCCAACGATACCGCATTCAGAGCGAACAGTTTGAAGATCTCTGGCTCATAACCAATGAACTCATCCTCCGCCTTCAGGAACATTTTGAAAAACAGGGAACCAAAGACTTTTCGTGTTCTTTTTCTGGGTGTGTGCCCCTTCAAGAATATTTTGAGTTGATTGATCATCATTTTGAGCTGCGGATAAATGGTAAAAAATTGGAAGAACTTTTATCTGAAAGAGCTGTACAATTTCGGGCCATTCAGCGTCGGCTTCTGACAAGATTCAGAGACAAGACCCCTGCCCCACTGCAGCACCTGGACACCCTGCTGGACGGGACATACAAGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCGTCGGCTTCTGACAAGAT
60.74
CAACTGTAGTGGAGGCTGCA
59.96
157
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCGTCGGCTTCTGACAAGAT
60.74
AACTGTAGTGGAGGCTGCAC
59.96
156
PCR template sequence:
ATTTCGGGCCATTCAGCGTCGGCTTCTGACAAGATTCAGAGACAAGACCCCTGCCCCACTGCAGCACCTGGACACCCTGCTGGACGGGACATACAAGCAGATTACCCTGCAGAACCGAGTGGTGTTGCAGAAGGTCAAGCTGTCTATCTATGTGCAGCCTCCACTACAGTTGACTTGTGATCAGTTCACCTTTGACTTCA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-181b-5p(1), mmu-miR-540-3p(1), mmu-miR-339-3p(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GACATACAAGCAGATTACCCTGCAGA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCBBS9_771_ORF_1
0.8387
0.129318602
0.999204555
1431
ORF sequence:
ATGACGAGTTCAGTAGCGTTTTCTGTGTACCTGAAGAGAAACTACACACCATCCGAGTTAGAAGGAAATGCTGTTGTTTCTTACTCCAGACCGACAGGTATTCCTCGGGTTGTCCAATGTAAATTTAGACTTCCTCTGAAACTGATTTGCCTACCTGGTCAGCCTTCAAAAACTGCAAGCCACAAACTAACTATAGACACCAACAAATCTCCTGTCAGTCTGCTCGGTCTCTTCCCAGACTTTGCCAACCCATCAGATGACGACCAAGTGAATGTAATGGGCTTCCGTCTCCTAGGAGGCGCTCGAGTGACTCTTCTTGCTTCCAGAACATCCCAACGATACCGCATTCAGAGCGAACAGTTTGAAGATCTCTGGCTCATAACCAATGAACTCATCCTCCGCCTTCAGGAACATTTTGAAAAACAGGGAACCAAAGACTTTTCGTGTTCTTTTTCTGGGTGTGTGCCCCTTCAAGAATATTTTGAGTTGATTGATCATCATTTTGAGCTGCGGATAAATGGTAAAAAATTGGAAGAACTTTTATCTGAAAGAGCTGTACAATTTCGGGCCATTCAGCGTCGGCTTCTGACAAGATTCAGAGACAAGACCCCTGCCCCACTGCAGCACCTGGACACCCTGCTGGACGGGACATACAAGCAGATTACCCTGCAGAACCGAGTGGTGTTGCAGAAGGTCAAGCTGTCTATCTATGTGCAGCCTCCACTACAGTTGACTTGTGATCAGTTCACCTTTGACTTCACGGTTCCAGATATGACGAGTTCAGTAGCGTTTTCTGTGTACCTGAAGAGAAACTACACACCATCCGAGTTAGAAGGAAATGCTGTTGTTTCTTACTCCAGACCGACAGGTATTCCTCGGGTTGTCCAATGTAAATTTAGACTTCCTCTGAAACTGATTTGCCTACCTGGTCAGCCTTCAAAAACTGCAAGCCACAAACTAACTATAGACACCAACAAATCTCCTGTCAGTCTGCTCGGTCTCTTCCCAGACTTTGCCAACCCATCAGATGACGACCAAGTGAATGTAATGGGCTTCCGTCTCCTAGGAGGCGCTCGAGTGACTCTTCTTGCTTCCAGAACATCCCAACGATACCGCATTCAGAGCGAACAGTTTGAAGATCTCTGGCTCATAACCAATGAACTCATCCTCCGCCTTCAGGAACATTTTGAAAAACAGGGAACCAAAGACTTTTCGTGTTCTTTTTCTGGGTGTGTGCCCCTTCAAGAATATTTTGAGTTGATTGATCATCATTTTGAGCTGCGGATAAATGGTAAAAAATTGGAAGAACTTTTATCTGAAAGAGCTGTACAATTTCGGGCCATTCAGCGTCGGCTTCTGACAAGATTCAGAGACAAGACCCCTGCCCCACTGCAGCACCTGGACACCCTGCTGGACGGGACATACAAGCAG
Peptide sequence:
MTSSVAFSVYLKRNYTPSELEGNAVVSYSRPTGIPRVVQCKFRLPLKLICLPGQPSKTASHKLTIDTNKSPVSLLGLFPDFANPSDDDQVNVMGFRLLGGARVTLLASRTSQRYRIQSEQFEDLWLITNELILRLQEHFEKQGTKDFSCSFSGCVPLQEYFELIDHHFELRINGKKLEELLSERAVQFRAIQRRLLTRFRDKTPAPLQHLDTLLDGTYKQITLQNRVVLQKVKLSIYVQPPLQLTCDQFTFDFTVPDMTSSVAFSVYLKRNYTPSELEGNAVVSYSRPTGIPRVVQCKFRLPLKLICLPGQPSKTASHKLTIDTNKSPVSLLGLFPDFANPSDDDQVNVMGFRLLGGARVTLLASRTSQRYRIQSEQFEDLWLITNELILRLQEHFEKQGTKDFSCSFSGCVPLQEYFELIDHHFELRINGKKLEELLSERAVQFRAIQRRLLTRFRDKTPAPLQHLDTLLDGTYKQ
IRESfinder result
IRESfinder score
0.747110887
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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