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mmu_ciTsc22d1_275
Basic information of circular RNA
PanCircBase ID:
mmu_ciTsc22d1_275
mm39_Chr. Position ID:
chr14|76656042|76656317|+
Gene name:
Tsc22d1
Transcript:
ENSMUST00000176886.2
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
1
Exon/intron offsets:
0
Genomic length:
275
Exon/intron sizes in nt:
275
Flanking exon/introns:
chr14:76656042-76656405
Splice length:
275
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTTAGTTCAGCCGCTCCTTCTGGAATGCCTTCTGTCCCAACAAACTTAGTTCCACCACAGAATATAGCACAACCCCCAGCCACCCAAAATGGCAGTTTGGTTCAAAGTGTTAGTCAATCTCCCTTGATAGCCACTAACATAAATTTGCCTTTGGCACAACAGATACCACTAAGTTCTACTCAGTTCTCTACACAATCATTAGCTCAGGCCATTGGAAGCCAAATGGAAGATGCCAGGCGCCCAGCGGAGCCCTCCTTAGGCGGCTTACCTCAGAC
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TAGCTCAGGCCATTGGAAGC
60.11
GGCTGGGGGTTGTGCTATAT
59.52
157
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TAGCTCAGGCCATTGGAAGC
60.11
TGGCTGGGGGTTGTGCTATA
60.92
158
PCR template sequence:
CTACTCAGTTCTCTACACAATCATTAGCTCAGGCCATTGGAAGCCAAATGGAAGATGCCAGGCGCCCAGCGGAGCCCTCCTTAGGCGGCTTACCTCAGACGTTAGTTCAGCCGCTCCTTCTGGAATGCCTTCTGTCCCAACAAACTTAGTTCCACCACAGAATATAGCACAACCCCCAGCCACCCAAAATGGCAGTTTGG
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-146a-5p(1), mmu-miR-146b-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GCTTACCTCAGACGTTAGTTCAGCCG
siRNA sets
ACTAACGTCTGAGGTAAGC, CTGAACTAACGTCTGAGGT, AACTAACGTCTGAGGTAAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CITSC22D1_275_ORF_1
0.839
-0.132980809
0.11159662
300
ORF sequence:
ATGCCTTCTGTCCCAACAAACTTAGTTCCACCACAGAATATAGCACAACCCCCAGCCACCCAAAATGGCAGTTTGGTTCAAAGTGTTAGTCAATCTCCCTTGATAGCCACTAACATAAATTTGCCTTTGGCACAACAGATACCACTAAGTTCTACTCAGTTCTCTACACAATCATTAGCTCAGGCCATTGGAAGCCAAATGGAAGATGCCAGGCGCCCAGCGGAGCCCTCCTTAGGCGGCTTACCTCAGACGTTAGTTCAGCCGCTCCTTCTGGAATGCCTTCTGTCCCAACAAACTTAG
Peptide sequence:
MPSVPTNLVPPQNIAQPPATQNGSLVQSVSQSPLIATNINLPLAQQIPLSSTQFSTQSLAQAIGSQMEDARRPAEPSLGGLPQTLVQPLLLECLLSQQT
IRESfinder result
IRESfinder score
0.624109024
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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