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mmu_circMpped2_526
Basic information of circular RNA
PanCircBase ID:
mmu_circMpped2_526
mm39_Chr. Position ID:
chr2|106529632|106605015|+
Gene name:
Mpped2
Transcript:
ENSMUST00000124461.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
2,3,4
Exon/intron offsets:
0,45412,75287
Genomic length:
75383
Exon/intron sizes in nt:
248,182,96
Flanking exon/introns:
chr2:106526021-106529632|chr2:106605015-106613977
Splice length:
526
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
AACGCACAGTGGTATTGATGAGTAGACCCTTGGATTCAGAGGTTGGCTGAAACCCATCATGCCCGCTTCCAGCTTTTGCTCCGGAGAGTTGTGAATTGCTCATGCCTGTAGGGAGGAAGGATGGCACATGGGATTCCTTCTCAAGGCAAAGTTACCATAACGGTGGATGAGTATAGCTCAAACCCCACCCAGGCATTCACACACTACAACATCAACCAGAGCAGATTCCAGCCGCCACATGTACATATGGTCGACCCCATCCCATATGACACTCCAAAACCAGCGGGCCACACGCGGTTTGTCTGCATCTCAGACACACACTCCAGAACAGATGGTATCCAGATGCCTTATGGGGACATCCTTCTCCACACAGGCGATTTCACCGAGCTGGGACTGCCCTCAGAGGTTAAGAAGTTTAATGACTGGTTAGACTTGGTTTCCCATTGCAAGCATGGAAGAAACCCTAATGCATGAGTTTCAGAGGAGAAGGTAGCAGTCTGAACCTGCTGTGTGGCTCCATCAGCAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGGTTTCCCATTGCAAGCATG
60
GGGTTTCAGCCAACCTCTGA
59.89
148
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTTGGTTTCCCATTGCAAGCA
59.93
GGGTTTCAGCCAACCTCTGA
59.89
150
PCR template sequence:
TTAGACTTGGTTTCCCATTGCAAGCATGGAAGAAACCCTAATGCATGAGTTTCAGAGGAGAAGGTAGCAGTCTGAACCTGCTGTGTGGCTCCATCAGCAAAACGCACAGTGGTATTGATGAGTAGACCCTTGGATTCAGAGGTTGGCTGAAACCCATCATGCCCGCTTCCAGCTTTTGCTCCGGAGAGTTGTGAATTGCT
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-122-5p(1), mmu-miR-320-3p(1), mmu-miR-214-3p(1), mmu-miR-680(1), mmu-miR-207(1), mmu-miR-574-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GCTCCATCAGCAAAACGCACAGTGGT
siRNA sets
CTGTGCGTTTTGCTGATGG, TGTGCGTTTTGCTGATGGA, TGCGTTTTGCTGATGGAGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCMPPED2_526_ORF_5
0.9853
0.126524591
0.088380501
81
ORF sequence:
ATGAGTTTCAGAGGAGAAGGTAGCAGTCTGAACCTGCTGTGTGGCTCCATCAGCAAAACGCACAGTGGTATTGATGAGTAG
Peptide sequence:
MSFRGEGSSLNLLCGSISKTHSGIDE
IRESfinder result
IRESfinder score
0.388966486
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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