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mmu_circBbs9_453
Basic information of circular RNA
PanCircBase ID:
mmu_circBbs9_453
mm39_Chr. Position ID:
chr9|22402113|22425389|+
Gene name:
Bbs9
Transcript:
ENSMUST00000039798.16
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
2,3,4,5
Exon/intron offsets:
0,5891,13227,23162
Genomic length:
23276
Exon/intron sizes in nt:
123,151,65,114
Flanking exon/introns:
chr9:22387351-22402113|chr9:22425389-22479000
Splice length:
453
Other database IDs:
circBase: mmu_circ_0001754, CIRCpedia: MMU_CIRCpedia_13559, circAtlas: mmu-Bbs9_0016
circBase: hsa_circ_0003162, circAtlas: hsa-BBS9_0009, CIRCpedia: HSA_CIRCpedia_57924
Human Ortholog IDs:
Mature spliced Sequence:
GTTGAAAGGAAATGTCCTTATTTAAAGCCCGTGACTGGTGGTCTACTGTGTTGGGAGAAAAAGAAGAATTTGACCAGGGCTGCTTATGCTTGGCTGATGTGGACAACAGTGGGAACGGCCACGATAAAATCATTGTGGGCAGCTTCATGGGCTACCTGAGAATCTTTAGTCCCCATTCTGTAAAAGCTGGAGGTGGGCCTCAGGCTGAAGATTTACTTCTAGAAGTGCATCTGCGGGACCCAGTGCTGCAAGTGGAAGTCGGGAAGTTTGTCTCGGGCACCGAGATGCTTCATCTGGCCGTGCTGCACTCCCGGAAGCTCTGTGTCTACTCCGTCTCAGGGACATTGGGAAATGTGGAACATGGAAACCAATATCAGATAAAACTAATGTATGAGCACCATCTTCAGAGGACGGCCTGCAATATGACGTATGGACCCTTTGGTGGTGTAAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CACCATCTTCAGAGGACGGC
60.46
AAGCATAAGCAGCCCTGGTC
60.39
149
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCACCATCTTCAGAGGACGG
60.46
AAGCATAAGCAGCCCTGGTC
60.39
150
PCR template sequence:
GTGGAACATGGAAACCAATATCAGATAAAACTAATGTATGAGCACCATCTTCAGAGGACGGCCTGCAATATGACGTATGGACCCTTTGGTGGTGTAAAAGGTTGAAAGGAAATGTCCTTATTTAAAGCCCGTGACTGGTGGTCTACTGTGTTGGGAGAAAAAGAAGAATTTGACCAGGGCTGCTTATGCTTGGCTGATGT
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-150-5p(1), mmu-miR-125b-5p(1), mmu-miR-125a-5p(1), mmu-miR-29b-2-5p(1), mmu-miR-670-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GGTGGTGTAAAAGGTTGAAAGGAAAT
siRNA sets
TTTCCTTTCAACCTTTTAC, TTCCTTTCAACCTTTTACA, ATTTCCTTTCAACCTTTTA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCBBS9_453_ORF_1
0.9261
0.160904004
0.58455031
447
ORF sequence:
ATGTCCTTATTTAAAGCCCGTGACTGGTGGTCTACTGTGTTGGGAGAAAAAGAAGAATTTGACCAGGGCTGCTTATGCTTGGCTGATGTGGACAACAGTGGGAACGGCCACGATAAAATCATTGTGGGCAGCTTCATGGGCTACCTGAGAATCTTTAGTCCCCATTCTGTAAAAGCTGGAGGTGGGCCTCAGGCTGAAGATTTACTTCTAGAAGTGCATCTGCGGGACCCAGTGCTGCAAGTGGAAGTCGGGAAGTTTGTCTCGGGCACCGAGATGCTTCATCTGGCCGTGCTGCACTCCCGGAAGCTCTGTGTCTACTCCGTCTCAGGGACATTGGGAAATGTGGAACATGGAAACCAATATCAGATAAAACTAATGTATGAGCACCATCTTCAGAGGACGGCCTGCAATATGACGTATGGACCCTTTGGTGGTGTAAAAGGTTGA
Peptide sequence:
MSLFKARDWWSTVLGEKEEFDQGCLCLADVDNSGNGHDKIIVGSFMGYLRIFSPHSVKAGGGPQAEDLLLEVHLRDPVLQVEVGKFVSGTEMLHLAVLHSRKLCVYSVSGTLGNVEHGNQYQIKLMYEHHLQRTACNMTYGPFGGVKG
IRESfinder result
IRESfinder score
0.529342999
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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