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mmu_ciAbca8b_520
Basic information of circular RNA
PanCircBase ID:
mmu_ciAbca8b_520
mm39_Chr. Position ID:
chr11|109826647|109827167|-
Gene name:
Abca8b
Transcript:
ENSMUST00000020948.15
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
36
Exon/intron offsets:
0
Genomic length:
520
Exon/intron sizes in nt:
520
Flanking exon/introns:
chr11:109826621-109827167
Splice length:
520
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAAGTTGCTCTTTGGTTTCGATCTGATACCGAACGTTGGTTTCCCCCTGTCAGTTATACTGGTTTGTAGTCAGTTGAAAGGAAACGTGGCAGAAAAATTACTCGATAGATATCTGATGGAAAGCAGAGAAGATAGAGCTGATGTAAAAGCAGATGTACCATATATTGTGGCCCTACTATGTGCTATGTCCCATCCTTGGCTTGTATAATCTCTTTCTCATGAAGACTTTTCGGGATCAAGATTGTCATTCTAAACTAAAATAATATGTTTAAGGGACTAGAAGGTAATTCAGGGTTAAGTGTTTGCTGTACAAGCATGAAAATATGAACGTTACTCAACACCCACATTAAAAGCCCAATGTGATTGCACAGTCCTGTAATCCCTACACCAAGAGTGGAGGCAGGTAAATCTTGTTCTTTTGATAGCCAACTAGAGAGTAGATATGTTGTTAACAACTCTTAGTCCTGATTAAAAATAACAACAGTTGAGTAGTGAGGTTGTAATGAGTTTAGTCCTAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACAACAGTTGAGTAGTGAGGTTGT
60.08
TTTTTCTGCCACGTTTCCTTTCA
59.81
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AACAACAGTTGAGTAGTGAGGT
57.24
TTTTCTGCCACGTTTCCTTTCA
59.24
140
PCR template sequence:
TTGATAGCCAACTAGAGAGTAGATATGTTGTTAACAACTCTTAGTCCTGATTAAAAATAACAACAGTTGAGTAGTGAGGTTGTAATGAGTTTAGTCCTAGGTAAAGTTGCTCTTTGGTTTCGATCTGATACCGAACGTTGGTTTCCCCCTGTCAGTTATACTGGTTTGTAGTCAGTTGAAAGGAAACGTGGCAGAAAAAT
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-541-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AGTTTAGTCCTAGGTAAAGTTGCTCT
siRNA sets
AGAGCAACTTTACCTAGGA, GAGCAACTTTACCTAGGAC, CTTTACCTAGGACTAAACT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIABCA8B_520_ORF_5
0.701
-0.299327783
0.010355616
87
ORF sequence:
ATGAGTTTAGTCCTAGGTAAAGTTGCTCTTTGGTTTCGATCTGATACCGAACGTTGGTTTCCCCCTGTCAGTTATACTGGTTTGTAG
Peptide sequence:
MSLVLGKVALWFRSDTERWFPPVSYTGL
IRESfinder result
IRESfinder score
0.781193376
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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