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mmu_circAtl1_248
Basic information of circular RNA
PanCircBase ID:
mmu_circAtl1_248
mm39_Chr. Position ID:
chr12|69972715|69972963|+
Gene name:
Atl1
Transcript:
ENSMUST00000222141.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
1
Exon/intron indexes:
3
Exon/intron offsets:
0
Genomic length:
248
Exon/intron sizes in nt:
248
Flanking exon/introns:
chr12:69954766-69972715|chr12:69972963-69978311
Splice length:
248
Other database IDs:
circAtlas: hsa-ATL1_0020, CIRCpedia: HSA_CIRCpedia_84626
Human Ortholog IDs:
Mature spliced Sequence:
GTGGGTTTTCAGAGAAGTCAAGTGACTGGAGCTCAGAAGAGGAGGAGCCAGTGAGAAAGGCAGGGCCTGTCCAGGTCCTCATCGTCAAGGACGACCATTCCTTTGAGTTAGACGAGGCTGCGCTGAACCGCATCCTTCTGTCCCAGGCCGTCAGAGACAAGGAGGTGGTTGCTGTGTCTGTTGCTGGAGCCTTTAGAAAAGGGAAATCCTTCCTGATGGACTTCATGTTGCGGTACATGTACAACCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GTTGCTGTGTCTGTTGCTGG
59.97
CCTTGACGATGAGGACCTGG
59.82
171
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGTTGCTGTGTCTGTTGCTG
59.97
CCTTGACGATGAGGACCTGG
59.82
172
PCR template sequence:
CGTCAGAGACAAGGAGGTGGTTGCTGTGTCTGTTGCTGGAGCCTTTAGAAAAGGGAAATCCTTCCTGATGGACTTCATGTTGCGGTACATGTACAACCAGGTGGGTTTTCAGAGAAGTCAAGTGACTGGAGCTCAGAAGAGGAGGAGCCAGTGAGAAAGGCAGGGCCTGTCCAGGTCCTCATCGTCAAGGACGACCATTC
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-149-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CATGTACAACCAGGTGGGTTTTCAGA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCATL1_248_ORF_1
1.0913
0.169438164
0.129577647
87
ORF sequence:
ATGGACTTCATGTTGCGGTACATGTACAACCAGGTGGGTTTTCAGAGAAGTCAAGTGACTGGAGCTCAGAAGAGGAGGAGCCAGTGA
Peptide sequence:
MDFMLRYMYNQVGFQRSQVTGAQKRRSQ
IRESfinder result
IRESfinder score
0.474487998
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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