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mmu_circTasp1_343
Basic information of circular RNA
PanCircBase ID:
mmu_circTasp1_343
mm39_Chr. Position ID:
chr2|139837992|139890229|-
Gene name:
Tasp1
Transcript:
ENSMUST00000046656.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
6,5,4,3
Exon/intron offsets:
0,12626,46021,52169
Genomic length:
52237
Exon/intron sizes in nt:
85,121,69,68
Flanking exon/introns:
chr2:139827128-139837992|chr2:139890229-139899206
Splice length:
343
Other database IDs:
CIRCpedia: MMU_CIRCpedia_8884, circAtlas: mmu-Tasp1_0048
Human Ortholog IDs:
Mature spliced Sequence:
GTGCAGGCTATCATTCTGAATCCAAAGCCAAGGAATATAAACATGTATGCAAACGAGCTTGTCAGAAGGCAATTGAGAAGCTACAGGCTGGTGCTCTTGCTACAGATGCAGTGGCTGCTGCTCTGGTGGAACTTGAGGATTCTCCTTTTACAAATGCAGGAATAGGATCTAATCTAAATCTCTTAGGAGAGATTGAATGTGATGCCAGCATAATGGATGGAAAGTCCTTAAACTTTGGAGCCGTTGGAGCACTGAGTGGAATCAAGAATCCAGTCTCAGTTGCTCACAGGCTCTTGTGTGAAGGGCAGAAGGGCAAGCTCTCTGCAGGCAGAATTCCTCCCTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GTCTCAGTTGCTCACAGGCT
59.97
TGCCTTCTGACAAGCTCGTT
59.89
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GTCTCAGTTGCTCACAGGCT
59.97
TTGCCTTCTGACAAGCTCGT
59.89
143
PCR template sequence:
TTGGAGCACTGAGTGGAATCAAGAATCCAGTCTCAGTTGCTCACAGGCTCTTGTGTGAAGGGCAGAAGGGCAAGCTCTCTGCAGGCAGAATTCCTCCCTGGTGCAGGCTATCATTCTGAATCCAAAGCCAAGGAATATAAACATGTATGCAAACGAGCTTGTCAGAAGGCAATTGAGAAGCTACAGGCTGGTGCTCTTGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
7
Interacting miRNAs (#binding sites)
mmu-miR-15a-5p(1), mmu-miR-181a-5p(1), mmu-miR-322-5p(1), mmu-miR-335-5p(1), mmu-miR-217-5p(1), mmu-miR-181b-5p(1), mmu-miR-377-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GAATTCCTCCCTGGTGCAGGCTATCA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTASP1_343_ORF_1
0.566
-0.084849661
0.030146246
150
ORF sequence:
ATGGATGGAAAGTCCTTAAACTTTGGAGCCGTTGGAGCACTGAGTGGAATCAAGAATCCAGTCTCAGTTGCTCACAGGCTCTTGTGTGAAGGGCAGAAGGGCAAGCTCTCTGCAGGCAGAATTCCTCCCTGGTGCAGGCTATCATTCTGA
Peptide sequence:
MDGKSLNFGAVGALSGIKNPVSVAHRLLCEGQKGKLSAGRIPPWCRLSF
IRESfinder result
IRESfinder score
0.454133363
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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