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mmu_circSsbp1_290
Basic information of circular RNA
PanCircBase ID:
mmu_circSsbp1_290
mm39_Chr. Position ID:
chr6|40451598|40453769|+
Gene name:
Ssbp1
Transcript:
ENSMUST00000114779.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
3,4,5
Exon/intron offsets:
0,1702,2083
Genomic length:
2171
Exon/intron sizes in nt:
61,141,88
Flanking exon/introns:
chr6:40449067-40451598|chr6:40453769-40454856
Splice length:
290
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTATTTCGTCAGTTTGTAAGACATGAGTCTGAAGTAGCCAGCAGTTTGGTTCTTGAACGATCTCTGAATCGTGTTCAGTTACTTGGACGAGTAGGTCAGGACCCTGTCATGAGACAGGTGGAAGGAAAAAACCCAGTCACAATATTTTCTCTAGCAACAAATGAGATGTGGCGATCAGGGGATAGTGAAGTATACCAAATGGGTGACGTTAGTCAGAAGACGACGTGGCACAGAATATCAGTGTTTCGACCAGGCCTCAGAGATGTGGCATATCAGTATGTGAAAAAGGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AAGACGACGTGGCACAGAAT
59.97
CCTGACCTACTCGTCCAAGT
58.45
174
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GACCAGGCCTCAGAGATGTG
59.82
CCTGACCTACTCGTCCAAGT
58.45
143
PCR template sequence:
TATACCAAATGGGTGACGTTAGTCAGAAGACGACGTGGCACAGAATATCAGTGTTTCGACCAGGCCTCAGAGATGTGGCATATCAGTATGTGAAAAAGGGGTATTTCGTCAGTTTGTAAGACATGAGTCTGAAGTAGCCAGCAGTTTGGTTCTTGAACGATCTCTGAATCGTGTTCAGTTACTTGGACGAGTAGGTCAGG
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-433-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ATGTGAAAAAGGGGTATTTCGTCAGT
siRNA sets
AAATACCCCTTTTTCACAT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSSBP1_290_ORF_1
0.5395
-0.008672378
0.055283691
201
ORF sequence:
ATGAGACAGGTGGAAGGAAAAAACCCAGTCACAATATTTTCTCTAGCAACAAATGAGATGTGGCGATCAGGGGATAGTGAAGTATACCAAATGGGTGACGTTAGTCAGAAGACGACGTGGCACAGAATATCAGTGTTTCGACCAGGCCTCAGAGATGTGGCATATCAGTATGTGAAAAAGGGGTATTTCGTCAGTTTGTAA
Peptide sequence:
MRQVEGKNPVTIFSLATNEMWRSGDSEVYQMGDVSQKTTWHRISVFRPGLRDVAYQYVKKGYFVSL
IRESfinder result
IRESfinder score
0.633499421
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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