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mmu_circFam133b_394
Basic information of circular RNA
PanCircBase ID:
mmu_circFam133b_394
mm39_Chr. Position ID:
chr5|3607743|3611089|+
Gene name:
Fam133b
Transcript:
ENSMUST00000115527.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
3,4,5,6,7,8
Exon/intron offsets:
0,729,917,1353,1862,3295
Genomic length:
3346
Exon/intron sizes in nt:
79,75,33,63,93,51
Flanking exon/introns:
chr5:3604736-3607743|chr5:3611089-3614240
Splice length:
394
Other database IDs:
CIRCpedia: HSA_CIRCpedia_369485
Human Ortholog IDs:
Mature spliced Sequence:
GGAGGAAGTCAAGGAACAGCTGGAAAAGAAAAAGAAGGGCTCCAAGGCTTTGGCTGAGTTTGAAGAAAAAATGAATGAGAATTGGAAGAAAGAACTAGAAAAACATAGAGAAAAATTATTAAGTGGAAATGAGAGCTCATCCAAAAAAAGACAGAAAAAGAAAAAAGAAAAGAAGAAATCTGGTAGGTATTCATCTTCTTCTTCATCGAGCTCTGATTCTTCCAGCAGTTCTTCAGATTCCGAAGATGAGGATAAAAAACAAACAAAAAGAAGGAAGAAAAAGAAGAGCCGTTGCCATAAGTCTCCTGAGAGCTCGGGGTCGGATTCGGCTTCAGACAGCAAGGATGGTTCAAAAAAGAAAAAGAAGTCCAAGGATGTAACTGAAAGAGAAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GTCGGATTCGGCTTCAGACA
60.11
TCTTCAAACTCAGCCAAAGCC
59.04
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GTCGGATTCGGCTTCAGACA
60.11
CTTCAAACTCAGCCAAAGCCT
59.04
141
PCR template sequence:
CCATAAGTCTCCTGAGAGCTCGGGGTCGGATTCGGCTTCAGACAGCAAGGATGGTTCAAAAAAGAAAAAGAAGTCCAAGGATGTAACTGAAAGAGAAAAGGGAGGAAGTCAAGGAACAGCTGGAAAAGAAAAAGAAGGGCTCCAAGGCTTTGGCTGAGTTTGAAGAAAAAATGAATGAGAATTGGAAGAAAGAACTAGAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-434-3p(1), mmu-miR-362-5p(1), mmu-miR-5101(1)
siRNAs for circular RNA silencing
Junction sequence
TGAAAGAGAAAAGGGAGGAAGTCAAG
siRNA sets
CTTGACTTCCTCCCTTTTC, TTGACTTCCTCCCTTTTCT, TGACTTCCTCCCTTTTCTC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCFAM133B_394_ORF_1
0.8246
0.054128304
0.319220608
381
ORF sequence:
ATGAATGAGAATTGGAAGAAAGAACTAGAAAAACATAGAGAAAAATTATTAAGTGGAAATGAGAGCTCATCCAAAAAAAGACAGAAAAAGAAAAAAGAAAAGAAGAAATCTGGTAGGTATTCATCTTCTTCTTCATCGAGCTCTGATTCTTCCAGCAGTTCTTCAGATTCCGAAGATGAGGATAAAAAACAAACAAAAAGAAGGAAGAAAAAGAAGAGCCGTTGCCATAAGTCTCCTGAGAGCTCGGGGTCGGATTCGGCTTCAGACAGCAAGGATGGTTCAAAAAAGAAAAAGAAGTCCAAGGATGTAACTGAAAGAGAAAAGGGAGGAAGTCAAGGAACAGCTGGAAAAGAAAAAGAAGGGCTCCAAGGCTTTGGCTGA
Peptide sequence:
MNENWKKELEKHREKLLSGNESSSKKRQKKKKEKKKSGRYSSSSSSSSDSSSSSSDSEDEDKKQTKRRKKKKSRCHKSPESSGSDSASDSKDGSKKKKKSKDVTEREKGGSQGTAGKEKEGLQGFG
IRESfinder result
IRESfinder score
0.525018111
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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