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mmu_circGm44505_240
Basic information of circular RNA
PanCircBase ID:
mmu_circGm44505_240
mm39_Chr. Position ID:
chr19|12754223|12755410|-
Gene name:
Gm44505
Transcript:
ENSMUST00000142247.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
6,5
Exon/intron offsets:
0,1082
Genomic length:
1187
Exon/intron sizes in nt:
1,35,105
Flanking exon/introns:
chr19:12753826-12754223|chr19:12755410-12755987
Splice length:
240
Other database IDs:
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
TAGTGATGAGGAAGAGGAGGAGGAAGAAGAAATGTTAATCAGTGAAGAGGAAATACCATTCAAAGATGACCCAAGAGATGAGACTTACAAGCCCCACCTTGAAAGGGAAACCCCAAAGCCACGGAGAAAATCAGGGAAGGTGAAAGAAGAGAAAGAAAAGAAAGAAATTAAAGTGGAAGTAGAAGTAGAGGTGAAAGAAGAAGAGAATGAAATTAGGGAAGATGAGGAGCCTCCCAGGAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGTGGAAGTAGAAGTAGAGGTGA
57.74
GGTGGGGCTTGTAAGTCTCA
59.31
167
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGTGGAAGTAGAAGTAGAGGTGA
57.74
AGGTGGGGCTTGTAAGTCTC
59.02
168
PCR template sequence:
TGAAAGAAGAGAAAGAAAAGAAAGAAATTAAAGTGGAAGTAGAAGTAGAGGTGAAAGAAGAAGAGAATGAAATTAGGGAAGATGAGGAGCCTCCCAGGAATAGTGATGAGGAAGAGGAGGAGGAAGAAGAAATGTTAATCAGTGAAGAGGAAATACCATTCAAAGATGACCCAAGAGATGAGACTTACAAGCCCCACCTT
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-670-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AGCCTCCCAGGAATAGTGATGAGGAA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCGM44505_240_ORF_1
1.1144
0.370542672
0.826171358
447
ORF sequence:
ATGTTAATCAGTGAAGAGGAAATACCATTCAAAGATGACCCAAGAGATGAGACTTACAAGCCCCACCTTGAAAGGGAAACCCCAAAGCCACGGAGAAAATCAGGGAAGGTGAAAGAAGAGAAAGAAAAGAAAGAAATTAAAGTGGAAGTAGAAGTAGAGGTGAAAGAAGAAGAGAATGAAATTAGGGAAGATGAGGAGCCTCCCAGGAATAGTGATGAGGAAGAGGAGGAGGAAGAAGAAATGTTAATCAGTGAAGAGGAAATACCATTCAAAGATGACCCAAGAGATGAGACTTACAAGCCCCACCTTGAAAGGGAAACCCCAAAGCCACGGAGAAAATCAGGGAAGGTGAAAGAAGAGAAAGAAAAGAAAGAAATTAAAGTGGAAGTAGAAGTAGAGGTGAAAGAAGAAGAGAATGAAATTAGGGAAGATGAGGAGCCTCCCAGG
Peptide sequence:
MLISEEEIPFKDDPRDETYKPHLERETPKPRRKSGKVKEEKEKKEIKVEVEVEVKEEENEIREDEEPPRNSDEEEEEEEEMLISEEEIPFKDDPRDETYKPHLERETPKPRRKSGKVKEEKEKKEIKVEVEVEVKEEENEIREDEEPPR
IRESfinder result
IRESfinder score
0.243050485
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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