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mmu_circSlc4a1ap_196
Basic information of circular RNA
PanCircBase ID:
mmu_circSlc4a1ap_196
mm39_Chr. Position ID:
chr5|31685386|31685582|+
Gene name:
Slc4a1ap
Transcript:
ENSMUST00000114533.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
1
Exon/intron indexes:
2
Exon/intron offsets:
0
Genomic length:
196
Exon/intron sizes in nt:
196
Flanking exon/introns:
chr5:31685028-31685386|chr5:31685582-31687976
Splice length:
196
Other database IDs:
circAtlas: mmu-Slc4a1ap_0007
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
GGACCAGAGGAAGACCGAGAGGCAGAATCTGAATTAACAGTAACACAGTTGAAGGAATTGCGTAAACAGCAGCAGATATTATTGGAGAAGAAGATGTTAGGTGAAGACTCAGATGAAGAAGAAGAAGCAAATACCACTGAAGGGAAGAGCAGTAGAAGTGGTCAAGATGATGAGCTGGGCTGCACGTGGGGAATGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCACTGAAGGGAAGAGCAGT
59.31
TGCTGCTGTTTACGCAATTCC
60.07
137
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACCACTGAAGGGAAGAGCAG
59.31
TGCTGCTGTTTACGCAATTCC
60.07
138
PCR template sequence:
AGGTGAAGACTCAGATGAAGAAGAAGAAGCAAATACCACTGAAGGGAAGAGCAGTAGAAGTGGTCAAGATGATGAGCTGGGCTGCACGTGGGGAATGGGGACCAGAGGAAGACCGAGAGGCAGAATCTGAATTAACAGTAACACAGTTGAAGGAATTGCGTAAACAGCAGCAGATATTATTGGAGAAGAAGATGTT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
NA
Interacting miRNAs (#binding sites)
NA
siRNAs for circular RNA silencing
Junction sequence
ACGTGGGGAATGGGGACCAGAGGAAG
siRNA sets
TTCCTCTGGTCCCCATTCC, TCCTCTGGTCCCCATTCCC, CCTCTGGTCCCCATTCCCC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSLC4A1AP_196_ORF_1
0.7908
0.294782892
0.362828272
279
ORF sequence:
ATGAAGAAGAAGAAGCAAATACCACTGAAGGGAAGAGCAGTAGAAGTGGTCAAGATGATGAGCTGGGCTGCACGTGGGGAATGGGGACCAGAGGAAGACCGAGAGGCAGAATCTGAATTAACAGTAACACAGTTGAAGGAATTGCGTAAACAGCAGCAGATATTATTGGAGAAGAAGATGTTAGGTGAAGACTCAGATGAAGAAGAAGAAGCAAATACCACTGAAGGGAAGAGCAGTAGAAGTGGTCAAGATGATGAGCTGGGCTGCACGTGGGGAATG
Peptide sequence:
MKKKKQIPLKGRAVEVVKMMSWAARGEWGPEEDREAESELTVTQLKELRKQQQILLEKKMLGEDSDEEEEANTTEGKSSRSGQDDELGCTWGM
IRESfinder result
IRESfinder score
0.330511065
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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