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mmu_ciGls_326
Basic information of circular RNA
PanCircBase ID:
mmu_ciGls_326
mm39_Chr. Position ID:
chr1|52258775|52259101|-
Gene name:
Gls
Transcript:
ENSMUST00000114513.9
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
2
Exon/intron offsets:
0
Genomic length:
326
Exon/intron sizes in nt:
326
Flanking exon/introns:
chr1:52258768-52259101
Splice length:
326
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGTTTTTATATTTTTTTCTCTCAACTTTCAAGGACGTAATACTAAGCCCATTCTATAGTATTGCTGAACTGTGGTCTTAAAGTTCACTGGCTTGTAGTGACTGACAGTGTTTCTCTTGATCAAATTTTTATTATGCTCACTCCAAGGTAATGAAAGAAAAGGAAACAATGAGAAACTTGTCCAGAAAGTGGATAATAGTGATACAAATACCACATACATGACCAAGTATTGGGTAGAAACTTTTATATTCAGGAATAAAACTTATAGTTGGAATAAGCATATACAATATCTGCGCTATATATTTACAAACTCTTATTTTTTTA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGCATATACAATATCTGCGCT
55.05
AGCCAGTGAACTTTAAGACCACA
60.12
143
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGCATATACAATATCTGCGCT
55.05
GCCAGTGAACTTTAAGACCACA
58.79
142
PCR template sequence:
AAGTATTGGGTAGAAACTTTTATATTCAGGAATAAAACTTATAGTTGGAATAAGCATATACAATATCTGCGCTATATATTTACAAACTCTTATTTTTTTAGTAAGTTTTTATATTTTTTTCTCTCAACTTTCAAGGACGTAATACTAAGCCCATTCTATAGTATTGCTGAACTGTGGTCTTAAAGTTCACTGGCTTGTAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
7
Interacting miRNAs (#binding sites)
mmu-miR-200a-3p(1), mmu-miR-141-3p(1), mmu-miR-218-5p(1), mmu-miR-297a-5p(1), mmu-miR-27a-5p(1), mmu-miR-466a-5p(1), mmu-miR-1187(1)
siRNAs for circular RNA silencing
Junction sequence
TCTTATTTTTTTAGTAAGTTTTTATA
siRNA sets
AAAAACTTACTAAAAAAAT, AACTTACTAAAAAAATAAG, AAAACTTACTAAAAAAATA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIGLS_326_ORF_1
0.6142
-0.449081841
0.010066933
189
ORF sequence:
ATGACCAAGTATTGGGTAGAAACTTTTATATTCAGGAATAAAACTTATAGTTGGAATAAGCATATACAATATCTGCGCTATATATTTACAAACTCTTATTTTTTTAGTAAGTTTTTATATTTTTTTCTCTCAACTTTCAAGGACGTAATACTAAGCCCATTCTATAGTATTGCTGAACTGTGGTCTTAA
Peptide sequence:
MTKYWVETFIFRNKTYSWNKHIQYLRYIFTNSYFFSKFLYFFLSTFKDVILSPFYSIAELWS
IRESfinder result
IRESfinder score
0.892257879
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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