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mmu_circFnbp4_324
Basic information of circular RNA
PanCircBase ID:
mmu_circFnbp4_324
mm39_Chr. Position ID:
chr2|90581411|90581962|+
Gene name:
Fnbp4
Transcript:
ENSMUST00000013759.6
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
3,4
Exon/intron offsets:
0,364
Genomic length:
551
Exon/intron sizes in nt:
1,37,187
Flanking exon/introns:
chr2:90577132-90581411|chr2:90581962-90583162
Splice length:
324
Other database IDs:
circBase: mmu_circ_0010227
circBase: hsa_circ_0004075, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_4644
Human Ortholog IDs:
Mature spliced Sequence:
GAGGTCTGTGCTTACTTGGTGCTTATGCTGACAGCGATGACGATGAGAGTGATGTGTCTGAGAAAACAGCCCAATCCAAAGAGGCCAACGGAAACCAGGCCACTGACATTGACAGCACACTGGCCAACTTCCTAGCGGAGATAGACGCCATAACAGCACCTCAGCCTGCAGCTCCTGTGGTAGCTTCTGCTCCACCTCCAACTCCACCTCGACCAGAACCAAAAGAAGCGGCAACACCTGCCCTTTCTCCCACCGCATCAAATGGATCAGACACTGCCCAGACGCCAGGGTGGCATTATGACACTCAGTGTTCATTGGCAGGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGATCAGACACTGCCCAGAC
60.11
TGGTTTCCGTTGGCCTCTTT
60.11
158
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGATCAGACACTGCCCAGAC
60.11
TTTCCGTTGGCCTCTTTGGA
59.82
155
PCR template sequence:
GAAGCGGCAACACCTGCCCTTTCTCCCACCGCATCAAATGGATCAGACACTGCCCAGACGCCAGGGTGGCATTATGACACTCAGTGTTCATTGGCAGGAGGAGGTCTGTGCTTACTTGGTGCTTATGCTGACAGCGATGACGATGAGAGTGATGTGTCTGAGAAAACAGCCCAATCCAAAGAGGCCAACGGAAACCAGGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
11
Interacting miRNAs (#binding sites)
mmu-miR-200a-3p(1), mmu-miR-141-3p(1), mmu-miR-199a-5p(1), mmu-miR-429-3p(1), mmu-miR-34c-5p(1), mmu-miR-34a-5p(1), mmu-miR-29b-3p(1), mmu-miR-29b-1-5p(1), mmu-miR-34b-5p(1), mmu-miR-705(1), mmu-miR-29b-2-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TCATTGGCAGGAGGAGGTCTGTGCTT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCFNBP4_324_ORF_1
1.1998
0.00925692
0.173595212
198
ORF sequence:
ATGGATCAGACACTGCCCAGACGCCAGGGTGGCATTATGACACTCAGTGTTCATTGGCAGGAGGAGGTCTGTGCTTACTTGGTGCTTATGCTGACAGCGATGACGATGAGAGTGATGTGTCTGAGAAAACAGCCCAATCCAAAGAGGCCAACGGAAACCAGGCCACTGACATTGACAGCACACTGGCCAACTTCCTAG
Peptide sequence:
MDQTLPRRQGGIMTLSVHWQEEVCAYLVLMLTAMTMRVMCLRKQPNPKRPTETRPLTLTAHWPTS
IRESfinder result
IRESfinder score
0.39863544
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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