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mmu_circFam118b_346
Basic information of circular RNA
PanCircBase ID:
mmu_circFam118b_346
mm39_Chr. Position ID:
chr9|35146526|35156002|-
Gene name:
Fam118b
Transcript:
ENSMUST00000063782.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
3,2
Exon/intron offsets:
0,9383
Genomic length:
9476
Exon/intron sizes in nt:
253,93
Flanking exon/introns:
chr9:35135038-35146526|chr9:35156002-35179018
Splice length:
346
Other database IDs:
circBase: mmu_circ_0015543, CIRCpedia: MMU_CIRCpedia_17671, circAtlas: mmu-Fam118b_0001
circBase: hsa_circ_0095318, circAtlas: hsa-FAM118B_0001, CIRCpedia: HSA_CIRCpedia_3664
Human Ortholog IDs:
Mature spliced Sequence:
AAACTGGATGGCTTCTACAGGGAGCCAGGCCTCTGATAAAAACAAGATTTTTGGATTCTTCAATGATGGCGAACCCCCCACCAAAAAGCCCAGGAAGCTGCTTCCAAGCCTGAAAACCAAAAAGCCTCGAGAACTTGTGCTGGTGATTGGGACAGGCATCAGTGCTGCGGTTGCACCGCAGGTCCCAGCCCTGAAATCCTGGAAGGGCTTAATCCAGGCCTTACTGGATGCTGCTATTGATTTTGATCTTTTAGAAGACGAGGAAAGCAAAAAGTTTCAGAAGTGTCTCCATGAAGACAAGAACCTCGTCCATGTCGCCCATGACCTCATTCAGAAACTCTCCCCT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AAGAACCTCGTCCATGTCGC
60.39
GCTTCCTGGGCTTTTTGGTG
59.97
146
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AAGAACCTCGTCCATGTCGC
60.39
AGCTTCCTGGGCTTTTTGGT
60.11
147
PCR template sequence:
TCTTTTAGAAGACGAGGAAAGCAAAAAGTTTCAGAAGTGTCTCCATGAAGACAAGAACCTCGTCCATGTCGCCCATGACCTCATTCAGAAACTCTCCCCTAAACTGGATGGCTTCTACAGGGAGCCAGGCCTCTGATAAAAACAAGATTTTTGGATTCTTCAATGATGGCGAACCCCCCACCAAAAAGCCCAGGAAGCTG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
7
Interacting miRNAs (#binding sites)
mmu-miR-16-5p(1), mmu-miR-15a-5p(1), mmu-miR-103-3p(1), mmu-miR-15b-5p(1), mmu-miR-149-5p(1), mmu-miR-107-3p(1), mmu-miR-129-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GAAACTCTCCCCTAAACTGGATGGCT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCFAM118B_346_ORF_1
1.1577
0.256293601
0.698983494
402
ORF sequence:
ATGAAGACAAGAACCTCGTCCATGTCGCCCATGACCTCATTCAGAAACTCTCCCCTAAACTGGATGGCTTCTACAGGGAGCCAGGCCTCTGATAAAAACAAGATTTTTGGATTCTTCAATGATGGCGAACCCCCCACCAAAAAGCCCAGGAAGCTGCTTCCAAGCCTGAAAACCAAAAAGCCTCGAGAACTTGTGCTGGTGATTGGGACAGGCATCAGTGCTGCGGTTGCACCGCAGGTCCCAGCCCTGAAATCCTGGAAGGGCTTAATCCAGGCCTTACTGGATGCTGCTATTGATTTTGATCTTTTAGAAGACGAGGAAAGCAAAAAGTTTCAGAAGTGTCTCCATGAAGACAAGAACCTCGTCCATGTCGCCCATGACCTCATTCAGAAACTCTCCCCT
Peptide sequence:
MKTRTSSMSPMTSFRNSPLNWMASTGSQASDKNKIFGFFNDGEPPTKKPRKLLPSLKTKKPRELVLVIGTGISAAVAPQVPALKSWKGLIQALLDAAIDFDLLEDEESKKFQKCLHEDKNLVHVAHDLIQKLSP
IRESfinder result
IRESfinder score
0.355449431
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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