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mmu_ciAbcf1_69
Basic information of circular RNA
PanCircBase ID:
mmu_ciAbcf1_69
mm39_Chr. Position ID:
chr17|36271637|36271706|-
Gene name:
Abcf1
Transcript:
ENSMUST00000043757.15
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
12
Exon/intron offsets:
0
Genomic length:
69
Exon/intron sizes in nt:
69
Flanking exon/introns:
chr17:36271621-36271706
Splice length:
69
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAGAGGAGATGGCGCAGGGGACACAAGGTAGGCCTTGCGGGTCTGTGGACCCTTGGACATGTGTCCTC
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTGTGGACCCTTGGACATGT
59.6
GCCTACCTTGTGTCCCCTG
59.7
60
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GTCTGTGGACCCTTGGACAT
59.31
CTACCTTGTGTCCCCTGCG
60.08
60
PCR template sequence:
TTGCGGGTCTGTGGACCCTTGGACATGTGTCCTCGTAGAGGAGATGGCGCAGGGGACACAAGGTAGGC
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-99a-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GACATGTGTCCTCGTAGAGGAGATGG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIABCF1_69_ORF_1
0.5272
-0.018532113
0.031958348
129
ORF sequence:
ATGGCGCAGGGGACACAAGGTAGGCCTTGCGGGTCTGTGGACCCTTGGACATGTGTCCTCGTAGAGGAGATGGCGCAGGGGACACAAGGTAGGCCTTGCGGGTCTGTGGACCCTTGGACATGTGTCCTC
Peptide sequence:
MAQGTQGRPCGSVDPWTCVLVEEMAQGTQGRPCGSVDPWTCVL
IRESfinder result
IRESfinder score
0.254124694
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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