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mmu_circScrn3_210
Basic information of circular RNA
PanCircBase ID:
mmu_circScrn3_210
mm39_Chr. Position ID:
chr2|73152328|73152538|+
Gene name:
Scrn3
Transcript:
ENSMUST00000090811.11
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
1
Exon/intron indexes:
5
Exon/intron offsets:
0
Genomic length:
210
Exon/intron sizes in nt:
210
Flanking exon/introns:
chr2:73149843-73152328|chr2:73152538-73160106
Splice length:
210
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GCGTTCGTAATATTTCCAATCAGCTTTCCATAACAACCAAGATTGACCGGGAACATCCAGACATGAGGAACTACGCTAAGCAGAGGGGCTGGTGGGATGGCAAAGAAGAATTTGATTTTACTGCGGCCTATTCTTACATTGACACGGCTGCTATGATGACTTCACCAAGCAGGTACTGCCAGGGCTACAAGCTTCTGGATAAACACAGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCTTACATTGACACGGCTGCT
60
CATGTCTGGATGTTCCCGGT
59.75
144
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACATTGACACGGCTGCTATGA
60.07
CATGTCTGGATGTTCCCGGT
59.75
140
PCR template sequence:
TTTGATTTTACTGCGGCCTATTCTTACATTGACACGGCTGCTATGATGACTTCACCAAGCAGGTACTGCCAGGGCTACAAGCTTCTGGATAAACACAGAGGCGTTCGTAATATTTCCAATCAGCTTTCCATAACAACCAAGATTGACCGGGAACATCCAGACATGAGGAACTACGCTAAGCAGAGGGGCTGGTGGGATGG
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-320-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GATAAACACAGAGGCGTTCGTAATAT
siRNA sets
TATTACGAACGCCTCTGTG, ATATTACGAACGCCTCTGT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSCRN3_210_ORF_1
0.9652
0.26138574
0.546590186
357
ORF sequence:
ATGAGGAACTACGCTAAGCAGAGGGGCTGGTGGGATGGCAAAGAAGAATTTGATTTTACTGCGGCCTATTCTTACATTGACACGGCTGCTATGATGACTTCACCAAGCAGGTACTGCCAGGGCTACAAGCTTCTGGATAAACACAGAGGCGTTCGTAATATTTCCAATCAGCTTTCCATAACAACCAAGATTGACCGGGAACATCCAGACATGAGGAACTACGCTAAGCAGAGGGGCTGGTGGGATGGCAAAGAAGAATTTGATTTTACTGCGGCCTATTCTTACATTGACACGGCTGCTATGATGACTTCACCAAGCAGGTACTGCCAGGGCTACAAGCTTCTGGATAAACACAGA
Peptide sequence:
MRNYAKQRGWWDGKEEFDFTAAYSYIDTAAMMTSPSRYCQGYKLLDKHRGVRNISNQLSITTKIDREHPDMRNYAKQRGWWDGKEEFDFTAAYSYIDTAAMMTSPSRYCQGYKLLDKHR
IRESfinder result
IRESfinder score
0.406247959
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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