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mmu_circApbb2_210
Basic information of circular RNA
PanCircBase ID:
mmu_circApbb2_210
mm39_Chr. Position ID:
chr5|66548969|66549678|-
Gene name:
Apbb2
Transcript:
ENSMUST00000160870.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
9,8,7
Exon/intron offsets:
0,145,646
Genomic length:
709
Exon/intron sizes in nt:
61,86,63
Flanking exon/introns:
chr5:66522463-66548969|chr5:66549678-66557418
Splice length:
210
Other database IDs:
circBase: mmu_circ_0012735, CIRCpedia: MMU_CIRCpedia_26504, circAtlas: mmu-Apbb2_0010
Human Ortholog IDs:
Mature spliced Sequence:
AAACAGCCATGGAGTGATTTTGCTGTTCTGAATGGGGGAAAGATTAATAGTGACATTTGGAAGGATTTGCACGCAGCCACAGTTAACCCAGACCCCAGTTTAAAAGAGTTTGAAGGAGCAACGCTACGCTATGCATCCTTGAAACTCAGAAACGCCCCTCATGGTGATGACGATGATTCTTGTAGTATCAACAGTGACCCAGAAGCCAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACTCAGAAACGCCCCTCATG
60.04
GGGGTCTGGGTTAACTGTGG
59.96
163
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACTCAGAAACGCCCCTCATG
60.04
TCTGGGTTAACTGTGGCTGC
60.25
159
PCR template sequence:
TGAAGGAGCAACGCTACGCTATGCATCCTTGAAACTCAGAAACGCCCCTCATGGTGATGACGATGATTCTTGTAGTATCAACAGTGACCCAGAAGCCAAGAAACAGCCATGGAGTGATTTTGCTGTTCTGAATGGGGGAAAGATTAATAGTGACATTTGGAAGGATTTGCACGCAGCCACAGTTAACCCAGACCCCAGTT
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-19b-3p(1), mmu-miR-19a-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CCCAGAAGCCAAGAAACAGCCATGGA
siRNA sets
CTGTTTCTTGGCTTCTGGG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCAPBB2_210_ORF_1
1.1381
-0.020976144
0.066751437
81
ORF sequence:
ATGGTGATGACGATGATTCTTGTAGTATCAACAGTGACCCAGAAGCCAAGAAACAGCCATGGAGTGATTTTGCTGTTCTGA
Peptide sequence:
MVMTMILVVSTVTQKPRNSHGVILLF
IRESfinder result
IRESfinder score
0.390558817
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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