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mmu_circBbs9_349
Basic information of circular RNA
PanCircBase ID:
mmu_circBbs9_349
mm39_Chr. Position ID:
chr9|22555040|22566661|+
Gene name:
Bbs9
Transcript:
ENSMUST00000039798.16
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
13,14,15
Exon/intron offsets:
0,2219,11480
Genomic length:
11621
Exon/intron sizes in nt:
10,31,05,141
Flanking exon/introns:
chr9:22550079-22555040|chr9:22566661-22570345
Splice length:
349
Other database IDs:
CIRCpedia: MMU_CIRCpedia_215046, circAtlas: mmu-Bbs9_0058
circAtlas: hsa-BBS9_0015, CIRCpedia: HSA_CIRCpedia_362996
Human Ortholog IDs:
Mature spliced Sequence:
ATTACCCTGCAGAACCGAGTGGTGTTGCAGAAGGTCAAGCTGTCTATCTATGTGCAGCCTCCACTACAGTTGACTTGTGATCAGTTCACCTTTGACTTCACGGTTCCAGATATGACGAGTTCAGTAGCGTTTTCTGTGTACCTGAAGAGAAACTACACACCATCCGAGTTAGAAGGAAATGCTGTTGTTTCTTACTCCAGACCGACAGGTATTCCTCGGGTTGTCCAATGTAAATTTAGACTTCCTCTGAAACTGATTTGCCTACCTGGTCAGCCTTCAAAAACTGCAAGCCACAAACTAACTATAGACACCAACAAATCTCCTGTCAGTCTGCTCGGTCTCTTCCCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ATTTGCCTACCTGGTCAGCC
60.03
CAACTGTAGTGGAGGCTGCA
59.96
166
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ATTTGCCTACCTGGTCAGCC
60.03
AACTGTAGTGGAGGCTGCAC
59.96
165
PCR template sequence:
AAACTGATTTGCCTACCTGGTCAGCCTTCAAAAACTGCAAGCCACAAACTAACTATAGACACCAACAAATCTCCTGTCAGTCTGCTCGGTCTCTTCCCAGATTACCCTGCAGAACCGAGTGGTGTTGCAGAAGGTCAAGCTGTCTATCTATGTGCAGCCTCCACTACAGTTGACTTGTGATCAGTTCACCTTTGACTTCA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
NA
Interacting miRNAs (#binding sites)
NA
siRNAs for circular RNA silencing
Junction sequence
GGTCTCTTCCCAGATTACCCTGCAGA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCBBS9_349_ORF_1
0.9347
-0.045530551
0.195827213
318
ORF sequence:
ATGACGAGTTCAGTAGCGTTTTCTGTGTACCTGAAGAGAAACTACACACCATCCGAGTTAGAAGGAAATGCTGTTGTTTCTTACTCCAGACCGACAGGTATTCCTCGGGTTGTCCAATGTAAATTTAGACTTCCTCTGAAACTGATTTGCCTACCTGGTCAGCCTTCAAAAACTGCAAGCCACAAACTAACTATAGACACCAACAAATCTCCTGTCAGTCTGCTCGGTCTCTTCCCAGATTACCCTGCAGAACCGAGTGGTGTTGCAGAAGGTCAAGCTGTCTATCTATGTGCAGCCTCCACTACAGTTGACTTGTGA
Peptide sequence:
MTSSVAFSVYLKRNYTPSELEGNAVVSYSRPTGIPRVVQCKFRLPLKLICLPGQPSKTASHKLTIDTNKSPVSLLGLFPDYPAEPSGVAEGQAVYLCAASTTVDL
IRESfinder result
IRESfinder score
0.80250863
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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