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mmu_circFaf1_527
Basic information of circular RNA
PanCircBase ID:
mmu_circFaf1_527
mm39_Chr. Position ID:
chr4|109698505|109748187|+
Gene name:
Faf1
Transcript:
ENSMUST00000102724.5
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
11,12,13,14,15
Exon/intron offsets:
0,979,20500,42327,49593
Genomic length:
49682
Exon/intron sizes in nt:
64,82,155,137,89
Flanking exon/introns:
chr4:109697639-109698505|chr4:109748187-109782494
Splice length:
527
Other database IDs:
circAtlas: mmu-Faf1_0023
circAtlas: hsa-FAF1_0079
Human Ortholog IDs:
Mature spliced Sequence:
TGCCAGAAAACGCAGAAAATGAAGGAGATGCCTTATTACAATTTACAGCAGAGTTTTCTTCAAGATATGGTGACTGCCATCCTGTATTTTTTATTGGCTCATTAGAAGCTGCTTTCCAAGAGGCCTTCTATGTGAAAGCCCGAGACAGAAAACTTCTTGCTATCTACCTCCACCATGATGAAAGTGTACTAACCAACGTGTTCTGCTCACAAATGCTTTGTGCTGAATCCATTGTTTCCTATCTGAGTCAAAATTTTATAACCTGGGCTTGGGATCTGACAAAGGACACCAACAGAGCAAGATTTCTGACAATGTGCAATAGACACTTTGGCAGCGTTATTGCACAAACTATTCGGACTCAAAAGACAGATCAGTTTCCACTTTTCCTGATTATCATGGGAAAGCGATCATCTAATGAAGTGTTAAATGTGATACAAGGTAATACAACAGTGGATGAGTTAATGATGAGACTCATGGCTGCAATGGAGATTTTCTCAGCTCAACAACAGGAAGACATTAAGGATGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACTCATGGCTGCAATGGAGA
59.38
ATACAGGATGGCAGTCACCA
58.42
145
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGACTCATGGCTGCAATGGA
59.38
ATACAGGATGGCAGTCACCA
58.42
147
PCR template sequence:
TGTGATACAAGGTAATACAACAGTGGATGAGTTAATGATGAGACTCATGGCTGCAATGGAGATTTTCTCAGCTCAACAACAGGAAGACATTAAGGATGAGTGCCAGAAAACGCAGAAAATGAAGGAGATGCCTTATTACAATTTACAGCAGAGTTTTCTTCAAGATATGGTGACTGCCATCCTGTATTTTTTATTGGCTC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
9
Interacting miRNAs (#binding sites)
mmu-miR-23b-3p(1), mmu-miR-32-5p(1), mmu-miR-92a-3p(1), mmu-miR-23a-3p(1), mmu-miR-25-3p(1), mmu-miR-363-3p(1), mmu-miR-301b-3p(1), mmu-miR-301a-3p(1), mmu-miR-680(1)
siRNAs for circular RNA silencing
Junction sequence
CATTAAGGATGAGTGCCAGAAAACGC
siRNA sets
TTTTCTGGCACTCATCCTT,CGTTTTCTGGCACTCATCC,TTTCTGGCACTCATCCTTA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCFAF1_527_ORF_1
0.9894
0.028015372
0.429862317
420
ORF sequence:
ATGCTTTGTGCTGAATCCATTGTTTCCTATCTGAGTCAAAATTTTATAACCTGGGCTTGGGATCTGACAAAGGACACCAACAGAGCAAGATTTCTGACAATGTGCAATAGACACTTTGGCAGCGTTATTGCACAAACTATTCGGACTCAAAAGACAGATCAGTTTCCACTTTTCCTGATTATCATGGGAAAGCGATCATCTAATGAAGTGTTAAATGTGATACAAGGTAATACAACAGTGGATGAGTTAATGATGAGACTCATGGCTGCAATGGAGATTTTCTCAGCTCAACAACAGGAAGACATTAAGGATGAGTGCCAGAAAACGCAGAAAATGAAGGAGATGCCTTATTACAATTTACAGCAGAGTTTTCTTCAAGATATGGTGACTGCCATCCTGTATTTTTTATTGGCTCATTAG
Peptide sequence:
MLCAESIVSYLSQNFITWAWDLTKDTNRARFLTMCNRHFGSVIAQTIRTQKTDQFPLFLIIMGKRSSNEVLNVIQGNTTVDELMMRLMAAMEIFSAQQQEDIKDECQKTQKMKEMPYYNLQQSFLQDMVTAILYFLLAH
IRESfinder result
IRESfinder score
0.634337538
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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