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mmu_circVps13b_258
Basic information of circular RNA
PanCircBase ID:
mmu_circVps13b_258
mm39_Chr. Position ID:
chr15|35572205|35576672|+
Gene name:
Vps13b
Transcript:
ENSMUST00000048646.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
20,21
Exon/intron offsets:
0,4319
Genomic length:
4467
Exon/intron sizes in nt:
110,148
Flanking exon/introns:
chr15:35534506-35572205|chr15:35576672-35597540
Splice length:
258
Other database IDs:
CIRCpedia: MMU_CIRCpedia_17781, circAtlas: mmu-Vps13b_0107
circBase: hsa_circ_0085076, circAtlas: hsa-VPS13B_0076, CIRCpedia: HSA_CIRCpedia_89519
Human Ortholog IDs:
Mature spliced Sequence:
GTGCTGTATTTCTTTGTAGTGTACAAGGACTCGCTGTTAACATTGACCCAATACTGTATACTTGGGTCATCTACCAACCACAGAAACGAGCAAATAGACATGCACAACAGCAGCCTGTGGTAGCTGTACCTCTTGTCACTTCAGTTAACAGAAGGAAAGAAGATGAACTGTCCATTGGAAGTGCCCCATTGGGAAAGCAGCAGTCATATCAGGCCTCAGAATATGCCAGCAGCCCAATCAAGACAAAAACAGTGACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCAGCAGTCATATCAGGCCT
59.89
TGCTCGTTTCTGTGGTTGGT
60.11
154
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGCAGCAGTCATATCAGGCC
59.89
TGCTCGTTTCTGTGGTTGGT
60.11
155
PCR template sequence:
GAAGATGAACTGTCCATTGGAAGTGCCCCATTGGGAAAGCAGCAGTCATATCAGGCCTCAGAATATGCCAGCAGCCCAATCAAGACAAAAACAGTGACAGGTGCTGTATTTCTTTGTAGTGTACAAGGACTCGCTGTTAACATTGACCCAATACTGTATACTTGGGTCATCTACCAACCACAGAAACGAGCAAATAGACA
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-101b-3p(1), mmu-miR-194-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AAAACAGTGACAGGTGCTGTATTTCT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.717388312
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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