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mmu_circBbs5_335
Basic information of circular RNA
PanCircBase ID:
mmu_circBbs5_335
mm39_Chr. Position ID:
chr2|69479365|69485978|+
Gene name:
Bbs5
Transcript:
ENSMUST00000134659.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
2,3,4,5
Exon/intron offsets:
0,3760,5041,6477
Genomic length:
6613
Exon/intron sizes in nt:
83,66,50,136
Flanking exon/introns:
chr2:69477686-69479365|chr2:69485978-69487240
Splice length:
335
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
ACAGATGAAAACAAGACCCGGGGAAGTCCTCATTGACTGTTTAGATTCCATTGAAGACACAAAAGGAAACAATGGAGACAGAGGTAGACTCTTAGTCACAAACTTAAGGATCATCTGGCATTCCTTGGCATTGCCCAGAGTCAATCTTTCTATTGGTTACAACTGCATATTGAATATCACAACAAGAACTGCTAACTCTAGCATATGAAACTTCTAAAATGTACCGTGACTTTAAGTTGAGAAGTGCAGTCATTCAGAACAAGCAGCTGAGGTTACTACCACAGGAGCATGTGTATGATAAGATCAATGGCGTATGGAATCTGTCCAGCGACCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCAGAACAAGCAGCTGAGGT
59.24
ACCTCTGTCTCCATTGTTTCCT
59.02
167
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCAGAACAAGCAGCTGAGGTT
59.86
ACCTCTGTCTCCATTGTTTCCT
59.02
167
PCR template sequence:
GTTGAGAAGTGCAGTCATTCAGAACAAGCAGCTGAGGTTACTACCACAGGAGCATGTGTATGATAAGATCAATGGCGTATGGAATCTGTCCAGCGACCAGACAGATGAAAACAAGACCCGGGGAAGTCCTCATTGACTGTTTAGATTCCATTGAAGACACAAAAGGAAACAATGGAGACAGAGGTAGACTCTTAGTCACA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-326-3p(1), mmu-miR-136-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GTCCAGCGACCAGACAGATGAAAACA
siRNA sets
TTTTCATCTGTCTGGTCGC,TTTCATCTGTCTGGTCGCT,GTTTTCATCTGTCTGGTCG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCBBS5_335_ORF_1
0.953
-0.138307015
0.098692242
255
ORF sequence:
ATGTGTATGATAAGATCAATGGCGTATGGAATCTGTCCAGCGACCAGACAGATGAAAACAAGACCCGGGGAAGTCCTCATTGACTGTTTAGATTCCATTGAAGACACAAAAGGAAACAATGGAGACAGAGGTAGACTCTTAGTCACAAACTTAAGGATCATCTGGCATTCCTTGGCATTGCCCAGAGTCAATCTTTCTATTGGTTACAACTGCATATTGAATATCACAACAAGAACTGCTAACTCTAGCATATGA
Peptide sequence:
MCMIRSMAYGICPATRQMKTRPGEVLIDCLDSIEDTKGNNGDRGRLLVTNLRIIWHSLALPRVNLSIGYNCILNITTRTANSSI
IRESfinder result
IRESfinder score
0.804629079
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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