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mmu_circBbs9_1177
Basic information of circular RNA
PanCircBase ID:
mmu_circBbs9_1177
mm39_Chr. Position ID:
chr9|22555040|22723839|+
Gene name:
Bbs9
Transcript:
ENSMUST00000039798.16
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
13,14,15,16,17,18,19,20
Exon/intron offsets:
0,2219,11480,15305,27040,35167,150006,168576
Genomic length:
168799
Exon/intron sizes in nt:
10,31,05,14,19,61,73,10,00,00,000
Flanking exon/introns:
chr9:22550079-22555040|chr9:22723839-22798876
Splice length:
1177
Other database IDs:
CIRCpedia: MMU_CIRCpedia_13589, circAtlas: mmu-Bbs9_0018
circAtlas: hsa-BBS9_0024, CIRCpedia: HSA_CIRCpedia_57933
Human Ortholog IDs:
Mature spliced Sequence:
ATTACCCTGCAGAACCGAGTGGTGTTGCAGAAGGTCAAGCTGTCTATCTATGTGCAGCCTCCACTACAGTTGACTTGTGATCAGTTCACCTTTGACTTCACGGTTCCAGATATGACGAGTTCAGTAGCGTTTTCTGTGTACCTGAAGAGAAACTACACACCATCCGAGTTAGAAGGAAATGCTGTTGTTTCTTACTCCAGACCGACAGGTATTCCTCGGGTTGTCCAATGTAAATTTAGACTTCCTCTGAAACTGATTTGCCTACCTGGTCAGCCTTCAAAAACTGCAAGCCACAAACTAACTATAGACACCAACAAATCTCCTGTCAGTCTGCTCGGTCTCTTCCCAGACTTTGCCAACCCATCAGATGACGACCAAGTGAATGTAATGGGCTTCCGTCTCCTAGGAGGCGCTCGAGTGACTCTTCTTGCTTCCAGAACATCCCAACGATACCGCATTCAGAGCGAACAGTTTGAAGATCTCTGGCTCATAACCAATGAACTCATCCTCCGCCTTCAGGAACATTTTGAAAAACAGGGAACCAAAGACTTTTCGTGTTCTTTTTCTGGGTGTGTGCCCCTTCAAGAATATTTTGAGTTGATTGATCATCATTTTGAGCTGCGGATAAATGGTAAAAAATTGGAAGAACTTTTATCTGAAAGAGCTGTACAATTTCGGGCCATTCAGCGTCGGCTTCTGACAAGATTCAGAGACAAGACCCCTGCCCCACTGCAGCACCTGGACACCCTGCTGGACGGGACATACAAGCAGGTGATTGCTCTAGCAGATGCGATCGAGGAGAACCAGGACAGGCTGTTGCAGTCATTCTCAGGCCTGAAGAGTGCCACCCATTTGCTGATCCTGCTAATCAGGCTGTGGCAGAGGCTGAGCGCTGACCAGACTGCTATTCTGGAAGCAGCATTTCTGCCACTACAGGAAGACACGCAGGAACTGGGCTGGGAAGAAACCGTGGATGCTGCCATTGCCTACCTTTTGAAAACCTGCCTGTCGAAGAGTTCCAAGGAGCAGGCTTTGAACCTCAGCAGCCAACTGAACATACCCAAAGATACCAGCCGGCTGAAGAAGCACATCACCCTGCTGTGTGATAGGTTAGCCAAAGGTGGGCGTCTCTGCGTGAGCACAGATGCAGCGGCCCCGCAGGCCATGGTTGTGCCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CACATCACCCTGCTGTGTGA
60.25
CAACTGTAGTGGAGGCTGCA
59.96
163
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CACATCACCCTGCTGTGTGA
60.25
AACTGTAGTGGAGGCTGCAC
59.96
162
PCR template sequence:
CTGAAGAAGCACATCACCCTGCTGTGTGATAGGTTAGCCAAAGGTGGGCGTCTCTGCGTGAGCACAGATGCAGCGGCCCCGCAGGCCATGGTTGTGCCAGATTACCCTGCAGAACCGAGTGGTGTTGCAGAAGGTCAAGCTGTCTATCTATGTGCAGCCTCCACTACAGTTGACTTGTGATCAGTTCACCTTTGACTTCA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-181b-5p(1), mmu-miR-1198-5p(1), mmu-miR-540-3p(1), mmu-miR-339-3p(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ATGGTTGTGCCAGATTACCCTGCAGA
siRNA sets
AGGGTAATCTGGCACAACC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCBBS9_1177_ORF_1
1.092
0.215664077
0.998236888
1209
ORF sequence:
ATGCAGCGGCCCCGCAGGCCATGGTTGTGCCAGATTACCCTGCAGAACCGAGTGGTGTTGCAGAAGGTCAAGCTGTCTATCTATGTGCAGCCTCCACTACAGTTGACTTGTGATCAGTTCACCTTTGACTTCACGGTTCCAGATATGACGAGTTCAGTAGCGTTTTCTGTGTACCTGAAGAGAAACTACACACCATCCGAGTTAGAAGGAAATGCTGTTGTTTCTTACTCCAGACCGACAGGTATTCCTCGGGTTGTCCAATGTAAATTTAGACTTCCTCTGAAACTGATTTGCCTACCTGGTCAGCCTTCAAAAACTGCAAGCCACAAACTAACTATAGACACCAACAAATCTCCTGTCAGTCTGCTCGGTCTCTTCCCAGACTTTGCCAACCCATCAGATGACGACCAAGTGAATGTAATGGGCTTCCGTCTCCTAGGAGGCGCTCGAGTGACTCTTCTTGCTTCCAGAACATCCCAACGATACCGCATTCAGAGCGAACAGTTTGAAGATCTCTGGCTCATAACCAATGAACTCATCCTCCGCCTTCAGGAACATTTTGAAAAACAGGGAACCAAAGACTTTTCGTGTTCTTTTTCTGGGTGTGTGCCCCTTCAAGAATATTTTGAGTTGATTGATCATCATTTTGAGCTGCGGATAAATGGTAAAAAATTGGAAGAACTTTTATCTGAAAGAGCTGTACAATTTCGGGCCATTCAGCGTCGGCTTCTGACAAGATTCAGAGACAAGACCCCTGCCCCACTGCAGCACCTGGACACCCTGCTGGACGGGACATACAAGCAGGTGATTGCTCTAGCAGATGCGATCGAGGAGAACCAGGACAGGCTGTTGCAGTCATTCTCAGGCCTGAAGAGTGCCACCCATTTGCTGATCCTGCTAATCAGGCTGTGGCAGAGGCTGAGCGCTGACCAGACTGCTATTCTGGAAGCAGCATTTCTGCCACTACAGGAAGACACGCAGGAACTGGGCTGGGAAGAAACCGTGGATGCTGCCATTGCCTACCTTTTGAAAACCTGCCTGTCGAAGAGTTCCAAGGAGCAGGCTTTGAACCTCAGCAGCCAACTGAACATACCCAAAGATACCAGCCGGCTGAAGAAGCACATCACCCTGCTGTGTGATAGGTTAGCCAAAGGTGGGCGTCTCTGCGTGAGCACAGATGCAGCGGCCCCGCAGGCCATGGTTGTGCCA
Peptide sequence:
MQRPRRPWLCQITLQNRVVLQKVKLSIYVQPPLQLTCDQFTFDFTVPDMTSSVAFSVYLKRNYTPSELEGNAVVSYSRPTGIPRVVQCKFRLPLKLICLPGQPSKTASHKLTIDTNKSPVSLLGLFPDFANPSDDDQVNVMGFRLLGGARVTLLASRTSQRYRIQSEQFEDLWLITNELILRLQEHFEKQGTKDFSCSFSGCVPLQEYFELIDHHFELRINGKKLEELLSERAVQFRAIQRRLLTRFRDKTPAPLQHLDTLLDGTYKQVIALADAIEENQDRLLQSFSGLKSATHLLILLIRLWQRLSADQTAILEAAFLPLQEDTQELGWEETVDAAIAYLLKTCLSKSSKEQALNLSSQLNIPKDTSRLKKHITLLCDRLAKGGRLCVSTDAAAPQAMVVP
IRESfinder result
IRESfinder score
0.617240709
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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