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mmu_circFip1l1_227
Basic information of circular RNA
PanCircBase ID:
mmu_circFip1l1_227
mm39_Chr. Position ID:
chr5|74701592|74706137|+
Gene name:
Fip1l1
Transcript:
ENSMUST00000080164.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
4,5,6
Exon/intron offsets:
0,1077,4480
Genomic length:
4545
Exon/intron sizes in nt:
58,104,65
Flanking exon/introns:
chr5:74697642-74701592|chr5:74706137-74706713
Splice length:
227
Other database IDs:
CIRCpedia: MMU_CIRCpedia_28750
Human Ortholog IDs:
Mature spliced Sequence:
TGCTAATCCTCCATCTGGAATTGAAGAAGAAGCTGCTGAAAATGGCGTGGCAAAACCGAAAGTGACAGAGACTGAAGACGACAGTGATAGTGACAGTGACGATGATGAAGATGATGTTCACGTCACTATAGGAGACATCAAAACAGGAGCACCACAGTATGGGAGTTATGGAACAGCACCAGTAAATCTTAATATCAAGGCAGGGGGAAGAGTTTATGGAAATACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCAAAACAGGAGCACCACAGT
60.06
TCACTTTCGGTTTTGCCACG
59.62
155
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCAAAACAGGAGCACCACAGT
60.06
TTTGCCACGCCATTTTCAGC
60.6
144
PCR template sequence:
ATAGGAGACATCAAAACAGGAGCACCACAGTATGGGAGTTATGGAACAGCACCAGTAAATCTTAATATCAAGGCAGGGGGAAGAGTTTATGGAAATACAGTGCTAATCCTCCATCTGGAATTGAAGAAGAAGCTGCTGAAAATGGCGTGGCAAAACCGAAAGTGACAGAGACTGAAGACGACAGTGATAGTGACAGTGAC
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-335-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TATGGAAATACAGTGCTAATCCTCCA
siRNA sets
ATTAGCACTGTATTTCCAT, GATTAGCACTGTATTTCCA, TTAGCACTGTATTTCCATA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.406011515
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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