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mmu_ciApbb3_161
Basic information of circular RNA
PanCircBase ID:
mmu_ciApbb3_161
mm39_Chr. Position ID:
chr18|36810336|36810497|-
Gene name:
Apbb3
Transcript:
ENSMUST00000001415.9
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
4
Exon/intron offsets:
0
Genomic length:
161
Exon/intron sizes in nt:
161
Flanking exon/introns:
chr18:36810309-36810497
Splice length:
161
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAGTGATTGGACATGGTGGCCAGTTTAAGACATTGGGAGCTCTCAAGAGAAAGATTAGGGGTAGAATAGTAAAGAGAGGGGTTCGTTAAGTGTAAAGAGTAGGAGTGTCCGAGTTTATATGTGTGGATCCTGTGTCATCCACCACTGCACTCGCCATCTC
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGAGTAGGAGTGTCCGAGTT
57.12
TCTTTCTCTTGAGAGCTCCCA
58.11
120
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AAGAGTAGGAGTGTCCGAGT
57.12
TCTTTCTCTTGAGAGCTCCCA
58.11
121
PCR template sequence:
GTTCGTTAAGTGTAAAGAGTAGGAGTGTCCGAGTTTATATGTGTGGATCCTGTGTCATCCACCACTGCACTCGCCATCTCGTAGTGATTGGACATGGTGGCCAGTTTAAGACATTGGGAGCTCTCAAGAGAAAGATTAGGGGTAGAATAGTAAAGAGAGG
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-425-5p(1), mmu-miR-193b-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CACTCGCCATCTCGTAGTGATTGGAC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIAPBB3_161_ORF_1
0.9709
-0.163594595
0.040643747
132
ORF sequence:
ATGTGTGGATCCTGTGTCATCCACCACTGCACTCGCCATCTCGTAGTGATTGGACATGGTGGCCAGTTTAAGACATTGGGAGCTCTCAAGAGAAAGATTAGGGGTAGAATAGTAAAGAGAGGGGTTCGTTAA
Peptide sequence:
MCGSCVIHHCTRHLVVIGHGGQFKTLGALKRKIRGRIVKRGVR
IRESfinder result
IRESfinder score
0.740369799
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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