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mmu_circAtp13a3_338
Basic information of circular RNA
PanCircBase ID:
mmu_circAtp13a3_338
mm39_Chr. Position ID:
chr16|30169780|30170226|-
Gene name:
Atp13a3
Transcript:
ENSMUST00000061350.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
13,12
Exon/intron offsets:
0,266
Genomic length:
446
Exon/intron sizes in nt:
1,58,180
Flanking exon/introns:
chr16:30168691-30169780|chr16:30170226-30171085
Splice length:
338
Other database IDs:
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
GAGAAAGTGTTCCAGTGACAAAGACTAATTTGCCAAATCCTTCAGTGGATGTGAAAGGAATGGGGGAGGAGCAGTACAGCCCAGAGACACACAAGCGGCACACTTTGTTTTGTGGGACGACTGTTATTCAGACCCGTTTCTACACTGGAGAACTTGTGAAAGCCATAGTAGTTAGAACAGGATTTAGTACTTCCAAAGGACAGCTTGTTCGTTCTATACTGTATCCCAAGCCAACTGACTTTAAACTCTATAGAGATGCCTACTTGTTTCTGCTGTGTCTTGTGGTGGTGGCTGGAATTGGATTTATCTACACAATCATCAATAGCATCCTAAATGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TTGTGGTGGTGGCTGGAATT
60.11
CTTGTGTGTCTCTGGGCTGT
59.89
154
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TTGTGGTGGTGGCTGGAATT
60.11
GTCTCTGGGCTGTACTGCTC
59.83
147
PCR template sequence:
CTTTAAACTCTATAGAGATGCCTACTTGTTTCTGCTGTGTCTTGTGGTGGTGGCTGGAATTGGATTTATCTACACAATCATCAATAGCATCCTAAATGAGGAGAAAGTGTTCCAGTGACAAAGACTAATTTGCCAAATCCTTCAGTGGATGTGAAAGGAATGGGGGAGGAGCAGTACAGCCCAGAGACACACAAGCGGCA
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-135a-5p(1), mmu-miR-326-3p(1), mmu-miR-214-3p(1), mmu-miR-669d-5p(1), mmu-miR-188-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CATCCTAAATGAGGAGAAAGTGTTCC
siRNA sets
CACTTTCTCCTCATTTAGG, ACACTTTCTCCTCATTTAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCATP13A3_338_ORF_1
0.823
0.110279475
0.243366254
297
ORF sequence:
ATGGGGGAGGAGCAGTACAGCCCAGAGACACACAAGCGGCACACTTTGTTTTGTGGGACGACTGTTATTCAGACCCGTTTCTACACTGGAGAACTTGTGAAAGCCATAGTAGTTAGAACAGGATTTAGTACTTCCAAAGGACAGCTTGTTCGTTCTATACTGTATCCCAAGCCAACTGACTTTAAACTCTATAGAGATGCCTACTTGTTTCTGCTGTGTCTTGTGGTGGTGGCTGGAATTGGATTTATCTACACAATCATCAATAGCATCCTAAATGAGGAGAAAGTGTTCCAGTGA
Peptide sequence:
MGEEQYSPETHKRHTLFCGTTVIQTRFYTGELVKAIVVRTGFSTSKGQLVRSILYPKPTDFKLYRDAYLFLLCLVVVAGIGFIYTIINSILNEEKVFQ
IRESfinder result
IRESfinder score
0.774998405
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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