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mmu_circAtm_361
Basic information of circular RNA
PanCircBase ID:
mmu_circAtm_361
mm39_Chr. Position ID:
chr9|53442930|53445266|-
Gene name:
Atm
Transcript:
ENSMUST00000232179.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
4,3,2
Exon/intron offsets:
0,2029,2234
Genomic length:
2336
Exon/intron sizes in nt:
146,113,102
Flanking exon/introns:
chr9:53438637-53442930|chr9:53445266-53447862
Splice length:
361
Other database IDs:
circBase: mmu_circ_0015668, CIRCpedia: MMU_CIRCpedia_22650, circAtlas: mmu-Atm_0001
circBase: hsa_circ_0024193, circAtlas: hsa-ATM_0001, CIRCpedia: HSA_CIRCpedia_3132
Human Ortholog IDs:
Mature spliced Sequence:
GTGAGGATGCATGTTCTGAAATCTTAAACCATGAGTCTAGCACTCAATGATCTGCTCATTTGCTGCCGGCAGTTAGAGCATGACAGAGCTACAGAAAGAAGGAAAGAAGTGGATAAATTTAAGCGCCTGATTCAGGATCCTGAAACAGTTCAACATTTAGATAGGCATTCTGATTCCAAACAAGGAAAATATCTGAATTGGGATGCTGTTTTCAGGTTTTTACAGAAGTACATTCAAAAAGAAATGGAAAGTCTGAGAACAGCAAAATCAAATGTATCAGCCACCACACAGAGCTCCAGACAGAAGAAGATGCAAGAGATCAGCAGTTTGGTCAGATACTTCATCAAATGTGCAAACAAAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCACACAGAGCTCCAGACAG
60.04
CGGCAGCAAATGAGCAGATC
59.97
146
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCACACAGAGCTCCAGACAG
60.04
TGTCATGCTCTAACTGCCGG
60.11
163
PCR template sequence:
GCAAAATCAAATGTATCAGCCACCACACAGAGCTCCAGACAGAAGAAGATGCAAGAGATCAGCAGTTTGGTCAGATACTTCATCAAATGTGCAAACAAAAGTGAGGATGCATGTTCTGAAATCTTAAACCATGAGTCTAGCACTCAATGATCTGCTCATTTGCTGCCGGCAGTTAGAGCATGACAGAGCTACAGAAAGAA
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-434-5p(1), mmu-miR-5101(1)
siRNAs for circular RNA silencing
Junction sequence
TGTGCAAACAAAAGTGAGGATGCATG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCATM_361_ORF_1
0.6077
0.020459069
0.214696145
381
ORF sequence:
ATGAGTCTAGCACTCAATGATCTGCTCATTTGCTGCCGGCAGTTAGAGCATGACAGAGCTACAGAAAGAAGGAAAGAAGTGGATAAATTTAAGCGCCTGATTCAGGATCCTGAAACAGTTCAACATTTAGATAGGCATTCTGATTCCAAACAAGGAAAATATCTGAATTGGGATGCTGTTTTCAGGTTTTTACAGAAGTACATTCAAAAAGAAATGGAAAGTCTGAGAACAGCAAAATCAAATGTATCAGCCACCACACAGAGCTCCAGACAGAAGAAGATGCAAGAGATCAGCAGTTTGGTCAGATACTTCATCAAATGTGCAAACAAAAGTGAGGATGCATGTTCTGAAATCTTAAACCATGAGTCTAGCACTCAATGA
Peptide sequence:
MSLALNDLLICCRQLEHDRATERRKEVDKFKRLIQDPETVQHLDRHSDSKQGKYLNWDAVFRFLQKYIQKEMESLRTAKSNVSATTQSSRQKKMQEISSLVRYFIKCANKSEDACSEILNHESSTQ
IRESfinder result
IRESfinder score
0.605660592
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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