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mmu_ciSrebf1_250
Basic information of circular RNA
PanCircBase ID:
mmu_ciSrebf1_250
mm39_Chr. Position ID:
chr11|60091001|60091251|-
Gene name:
Srebf1
Transcript:
ENSMUST00000134660.8
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
17
Exon/intron offsets:
0
Genomic length:
250
Exon/intron sizes in nt:
250
Flanking exon/introns:
chr11:60090977-60091251
Splice length:
250
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTGAGGAGGTGGCTGTGCTTACAGGGCTGGTGAGGGTCAGGGGCCGTCTTGGTCTAGTGAGACATACTGAGAGCTGACTTACAGAAATCAGCGGGGATGACAGTTTTTGAGGCAGTCATAGGAAAGAAGCTGAGCCCCCCTGTGTGCCCAGCCCAAGTGGAGAAAGCAGCCAGACTGGGAGTTCCACGTGGAAGAGCTCAGCTACTTTGTCCTGCACATGGGGTGTGGGCTCGGCCAGACCTAAGCCTCC
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GTGGAGAAAGCAGCCAGACT
59.96
CTCACTAGACCAAGACGGCC
59.83
155
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGTGGAGAAAGCAGCCAGAC
59.96
CTCACTAGACCAAGACGGCC
59.83
156
PCR template sequence:
GCCCAAGTGGAGAAAGCAGCCAGACTGGGAGTTCCACGTGGAAGAGCTCAGCTACTTTGTCCTGCACATGGGGTGTGGGCTCGGCCAGACCTAAGCCTCCGTGAGGAGGTGGCTGTGCTTACAGGGCTGGTGAGGGTCAGGGGCCGTCTTGGTCTAGTGAGACATACTGAGAGCTGACTTACAGAAATCAGCGGGGATGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
1
Interacting miRNAs (#binding sites)
mmu-miR-27a-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GACCTAAGCCTCCGTGAGGAGGTGGC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CISREBF1_250_ORF_1
0.9625
0.033844295
0.159822333
231
ORF sequence:
ATGACAGTTTTTGAGGCAGTCATAGGAAAGAAGCTGAGCCCCCCTGTGTGCCCAGCCCAAGTGGAGAAAGCAGCCAGACTGGGAGTTCCACGTGGAAGAGCTCAGCTACTTTGTCCTGCACATGGGGTGTGGGCTCGGCCAGACCTAAGCCTCCGTGAGGAGGTGGCTGTGCTTACAGGGCTGGTGAGGGTCAGGGGCCGTCTTGGTCTAGTGAGACATACTGAGAGCTGA
Peptide sequence:
MTVFEAVIGKKLSPPVCPAQVEKAARLGVPRGRAQLLCPAHGVWARPDLSLREEVAVLTGLVRVRGRLGLVRHTES
IRESfinder result
IRESfinder score
0.428404234
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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