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mmu_circFnbp1_392
Basic information of circular RNA
PanCircBase ID:
mmu_circFnbp1_392
mm39_Chr. Position ID:
chr2|30926129|30927300|-
Gene name:
Fnbp1
Transcript:
ENSMUST00000073879.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
13,12,11
Exon/intron offsets:
0,424,1038
Genomic length:
1171
Exon/intron sizes in nt:
13,71,22,133
Flanking exon/introns:
chr2:30923200-30926129|chr2:30927300-30930416
Splice length:
392
Other database IDs:
CIRCpedia: MMU_CIRCpedia_16009, circAtlas: mmu-Fnbp1_0003
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_112351
Human Ortholog IDs:
Mature spliced Sequence:
AGATGCCATCACCAAAATGAAAGATGTGTACCTAAAGAACCCTCAGATGGGAGACCCAGCCAGCCTGGACCAGAAGCTCACCGAAGTCACCCAGAACATAGAGAAACTGCGGCTGGAGGCTCAGAAGTTTGAGGCCTGGCTGGCTGAGGTAGAAGGCAGACTCCCAGCTCGGAGTGAGCAGGCACGCCGGCAGAGTGGACTGTATGATGGCCAGACACACCAGACGGTCACTAACTGTGCCCAGGACCGGGAGAGCCCAGATGGTAGTTACACAGAGGAGCAAAGCCAGGAGAGCGAGCACAAGGTCCTGGCCCCGGATTTCGACGATGAATTTGATGATGAGGAGCCGCTTCCAGCCATAGGGACCTGCAAGGCCCTCTACACATTTGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGATGATGAGGAGCCGCTTC
59.89
TGTTCTGGGTGACTTCGGTG
59.89
157
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCCCGGATTTCGACGATGAA
60.18
TGTTCTGGGTGACTTCGGTG
59.89
179
PCR template sequence:
AGCGAGCACAAGGTCCTGGCCCCGGATTTCGACGATGAATTTGATGATGAGGAGCCGCTTCCAGCCATAGGGACCTGCAAGGCCCTCTACACATTTGAAGAGATGCCATCACCAAAATGAAAGATGTGTACCTAAAGAACCCTCAGATGGGAGACCCAGCCAGCCTGGACCAGAAGCTCACCGAAGTCACCCAGAACATA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-431-5p(1), mmu-miR-3470b(1)
siRNAs for circular RNA silencing
Junction sequence
TACACATTTGAAGAGATGCCATCACC
siRNA sets
GATGGCATCTCTTCAAATG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCFNBP1_392_ORF_1
1.1766
0.468441225
0.84547348
396
ORF sequence:
ATGAAAGATGTGTACCTAAAGAACCCTCAGATGGGAGACCCAGCCAGCCTGGACCAGAAGCTCACCGAAGTCACCCAGAACATAGAGAAACTGCGGCTGGAGGCTCAGAAGTTTGAGGCCTGGCTGGCTGAGGTAGAAGGCAGACTCCCAGCTCGGAGTGAGCAGGCACGCCGGCAGAGTGGACTGTATGATGGCCAGACACACCAGACGGTCACTAACTGTGCCCAGGACCGGGAGAGCCCAGATGGTAGTTACACAGAGGAGCAAAGCCAGGAGAGCGAGCACAAGGTCCTGGCCCCGGATTTCGACGATGAATTTGATGATGAGGAGCCGCTTCCAGCCATAGGGACCTGCAAGGCCCTCTACACATTTGAAGAGATGCCATCACCAAAATGA
Peptide sequence:
MKDVYLKNPQMGDPASLDQKLTEVTQNIEKLRLEAQKFEAWLAEVEGRLPARSEQARRQSGLYDGQTHQTVTNCAQDRESPDGSYTEEQSQESEHKVLAPDFDDEFDDEEPLPAIGTCKALYTFEEMPSPK
IRESfinder result
IRESfinder score
0.202850511
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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