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mmu_circFancl_595
Basic information of circular RNA
PanCircBase ID:
mmu_circFancl_595
mm39_Chr. Position ID:
chr11|26347745|26409836|+
Gene name:
Fancl
Transcript:
ENSMUST00000004120.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
2,3,4,5,6,7,8
Exon/intron offsets:
0,1903,5576,9802,24662,36686,61940
Genomic length:
62091
Exon/intron sizes in nt:
5,96,15,71,01,97,69,150
Flanking exon/introns:
chr11:26337310-26347745|chr11:26409836-26418334
Splice length:
595
Other database IDs:
CIRCpedia: MMU_CIRCpedia_14759, circAtlas: mmu-Fancl_0009
Human Ortholog IDs:
Mature spliced Sequence:
GGAAGTGACTTTCACCTCAGAATAGTGCTGCCTAAGGACCTGCAGCTCAAGAAGGCAAGATTACTGTGTAGCCTGCAGCTGAAAAATATACTTAATGAGTACCATCAAGTAGTCCAACAGAGAATGAAGCACTCTCCTGATCTAATGAGTTTTATGATGGAATTGAAGATGATTTTGGAAGTTGCTTTAAAGAATAAGCAAGAGTTGTGTGTACAACCACCTTCTTGCAGTTTCTGCAAAGACCTTCTTACTGAGATAGGAGCCATTGGTTGGGATAAACTCGCATGTGTGGAGAGTTCCTTCAGCACCATCAAGTTAAAAGCAGATGATGCTTCTGGTAGGAAGCACCTAATCACTGTCAAGTTGAAGGCAAAGTATCCTGTAGAGCCACCAGATTGTGTTGTGGACTTTCCTGTCCCATTTTCTGTTTCCTGGACACCACAGAGCTCCTTGGTAGATGTTTATAGTCAGTTCTTGGTGGCATTAGAGACGCTGAAGGTGTTCTGGGATGTTATGGATGAAATTGATGAGAAGACCTGGGTGCTGGAGCCAGAGAAACCTCCCCGGAGTGCAACAGCACGCAGGATTGCATTAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGATGAGAAGACCTGGGTGC
59.38
GCTGCAGGCTACACAGTAATC
59.06
150
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ATGAGAAGACCTGGGTGCTG
59.38
GCTGCAGGCTACACAGTAATC
59.06
148
PCR template sequence:
AAGGTGTTCTGGGATGTTATGGATGAAATTGATGAGAAGACCTGGGTGCTGGAGCCAGAGAAACCTCCCCGGAGTGCAACAGCACGCAGGATTGCATTAGGGAAGTGACTTTCACCTCAGAATAGTGCTGCCTAAGGACCTGCAGCTCAAGAAGGCAAGATTACTGTGTAGCCTGCAGCTGAAAAATATACTTAATGAGT
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-149-5p(1), mmu-miR-34b-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AGGATTGCATTAGGGAAGTGACTTTC
siRNA sets
AAAGTCACTTCCCTAATGC, AAGTCACTTCCCTAATGCA, GAAAGTCACTTCCCTAATG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCFANCL_595_ORF_1
0.8774
0.087223408
0.545169473
480
ORF sequence:
ATGAAGCACTCTCCTGATCTAATGAGTTTTATGATGGAATTGAAGATGATTTTGGAAGTTGCTTTAAAGAATAAGCAAGAGTTGTGTGTACAACCACCTTCTTGCAGTTTCTGCAAAGACCTTCTTACTGAGATAGGAGCCATTGGTTGGGATAAACTCGCATGTGTGGAGAGTTCCTTCAGCACCATCAAGTTAAAAGCAGATGATGCTTCTGGTAGGAAGCACCTAATCACTGTCAAGTTGAAGGCAAAGTATCCTGTAGAGCCACCAGATTGTGTTGTGGACTTTCCTGTCCCATTTTCTGTTTCCTGGACACCACAGAGCTCCTTGGTAGATGTTTATAGTCAGTTCTTGGTGGCATTAGAGACGCTGAAGGTGTTCTGGGATGTTATGGATGAAATTGATGAGAAGACCTGGGTGCTGGAGCCAGAGAAACCTCCCCGGAGTGCAACAGCACGCAGGATTGCATTAGGGAAGTGA
Peptide sequence:
MKHSPDLMSFMMELKMILEVALKNKQELCVQPPSCSFCKDLLTEIGAIGWDKLACVESSFSTIKLKADDASGRKHLITVKLKAKYPVEPPDCVVDFPVPFSVSWTPQSSLVDVYSQFLVALETLKVFWDVMDEIDEKTWVLEPEKPPRSATARRIALGK
IRESfinder result
IRESfinder score
0.644824859
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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