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mmu_circAtp8b5_248
Basic information of circular RNA
PanCircBase ID:
mmu_circAtp8b5_248
mm39_Chr. Position ID:
chr4|43322409|43324928|+
Gene name:
Atp8b5
Transcript:
ENSMUST00000056010.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
11,12
Exon/intron offsets:
0,2430
Genomic length:
2519
Exon/intron sizes in nt:
159,89
Flanking exon/introns:
chr4:43320674-43322409|chr4:43324928-43334144
Splice length:
248
Other database IDs:
circBase: mmu_circ_0011614, CIRCpedia: MMU_CIRCpedia_20047, circAtlas: mmu-Atp8b5_0002
Human Ortholog IDs:
Mature spliced Sequence:
GAGAAGTTAGGTGTGATCCTCCTAATAACAAGCTGGACAAGTTTTCTGGAACCCTGAGCTACCTGGGGAACACCTACTTACTGAACCATGAAAGGCTACTGCTCCGAGGCTGCGTCATCCGGAACACAGACTGGTGCTACGGTTTGGTCGTTTACACTGGGCAAGACACCAAATTAATGCAGAACAGTGGACGGTCCACCTTCAAACGAACACATATAGATCATCTCATGAATGTCCTTGTGGTCTGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACACTGGGCAAGACACCAAA
60.03
GTGTTCCCCAGGTAGCTCAG
59.75
168
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AATGCAGAACAGTGGACGGT
59.89
GTGTTCCCCAGGTAGCTCAG
59.75
146
PCR template sequence:
CGTTTACACTGGGCAAGACACCAAATTAATGCAGAACAGTGGACGGTCCACCTTCAAACGAACACATATAGATCATCTCATGAATGTCCTTGTGGTCTGGGAGAAGTTAGGTGTGATCCTCCTAATAACAAGCTGGACAAGTTTTCTGGAACCCTGAGCTACCTGGGGAACACCTACTTACTGAACCATGAAAGGCTACT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-199a-5p(1), mmu-miR-29b-3p(1), mmu-miR-29a-3p(1), mmu-miR-29c-3p(1), mmu-miR-181b-5p(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CCTTGTGGTCTGGGAGAAGTTAGGTG
siRNA sets
CACCTAACTTCTCCCAGAC, CTAACTTCTCCCAGACCAC, ACCTAACTTCTCCCAGACC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCATP8B5_248_ORF_1
0.927
-0.001144618
0.06884322
129
ORF sequence:
ATGCAGAACAGTGGACGGTCCACCTTCAAACGAACACATATAGATCATCTCATGAATGTCCTTGTGGTCTGGGAGAAGTTAGGTGTGATCCTCCTAATAACAAGCTGGACAAGTTTTCTGGAACCCTGA
Peptide sequence:
MQNSGRSTFKRTHIDHLMNVLVVWEKLGVILLITSWTSFLEP
IRESfinder result
IRESfinder score
0.409900434
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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