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mmu_circDnajc13_354
Basic information of circular RNA
PanCircBase ID:
mmu_circDnajc13_354
mm39_Chr. Position ID:
chr9|104039853|104042332|-
Gene name:
Dnajc13
Transcript:
ENSMUST00000035170.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
52,51
Exon/intron offsets:
0,2305
Genomic length:
2479
Exon/intron sizes in nt:
1,80,174
Flanking exon/introns:
chr9:104039612-104039853|chr9:104042332-104042715
Splice length:
354
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
TTGCCTGAAGACTTTGCTGTGGTGTTCGGAGAAGCAGAGGGGGAGCTTGCTGTTGGAGGCGTTTTCTTGAGGATCTTTATTGCACAGCCAGCTTGGGTGCTGAGGAAACCCAGAGAATTTCTTATTGCACTGCTAGAAAAATTAACTGAGCTCCTGGAGAAGAACAATCCACATGGAGAAACTCTGGAAACACTGACCATGGCGACGGTCTGTCTCTTCAGTGCACAGCCTCAGTTGGCAGATCAAGTCCCGCCATTGGGCCATCTTCCCAAAGTTATCCAGGCGATGAATCACAGAAACAATGCCATTCCTAAGAGTGCAATTCGGGTTATTCACGTCCTGTCTGACAATGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCCAGGCGATGAATCACAGA
58.81
GAAAACGCCTCCAACAGCAA
59.62
143
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCCAGGCGATGAATCACAGA
58.81
AAAACGCCTCCAACAGCAAG
59.61
142
PCR template sequence:
ATTGGGCCATCTTCCCAAAGTTATCCAGGCGATGAATCACAGAAACAATGCCATTCCTAAGAGTGCAATTCGGGTTATTCACGTCCTGTCTGACAATGAGTTGCCTGAAGACTTTGCTGTGGTGTTCGGAGAAGCAGAGGGGGAGCTTGCTGTTGGAGGCGTTTTCTTGAGGATCTTTATTGCACAGCCAGCTTGGGTGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
11
Interacting miRNAs (#binding sites)
mmu-miR-130a-3p(1), mmu-miR-152-3p(1), mmu-miR-148b-3p(1), mmu-miR-148a-3p(1), mmu-miR-326-3p(1), mmu-miR-130b-3p(1), mmu-miR-301b-3p(1), mmu-miR-721(1), mmu-miR-34b-5p(1), mmu-miR-301a-3p(1), mmu-miR-207(1)
siRNAs for circular RNA silencing
Junction sequence
GTCTGACAATGAGTTGCCTGAAGACT
siRNA sets
TCTTCAGGCAACTCATTGT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCDNAJC13_354_ORF_1
1.1797
0.178908189
0.793470817
510
ORF sequence:
ATGGCGACGGTCTGTCTCTTCAGTGCACAGCCTCAGTTGGCAGATCAAGTCCCGCCATTGGGCCATCTTCCCAAAGTTATCCAGGCGATGAATCACAGAAACAATGCCATTCCTAAGAGTGCAATTCGGGTTATTCACGTCCTGTCTGACAATGAGTTGCCTGAAGACTTTGCTGTGGTGTTCGGAGAAGCAGAGGGGGAGCTTGCTGTTGGAGGCGTTTTCTTGAGGATCTTTATTGCACAGCCAGCTTGGGTGCTGAGGAAACCCAGAGAATTTCTTATTGCACTGCTAGAAAAATTAACTGAGCTCCTGGAGAAGAACAATCCACATGGAGAAACTCTGGAAACACTGACCATGGCGACGGTCTGTCTCTTCAGTGCACAGCCTCAGTTGGCAGATCAAGTCCCGCCATTGGGCCATCTTCCCAAAGTTATCCAGGCGATGAATCACAGAAACAATGCCATTCCTAAGAGTGCAATTCGGGTTATTCACGTCCTGTCTGACAATGAG
Peptide sequence:
MATVCLFSAQPQLADQVPPLGHLPKVIQAMNHRNNAIPKSAIRVIHVLSDNELPEDFAVVFGEAEGELAVGGVFLRIFIAQPAWVLRKPREFLIALLEKLTELLEKNNPHGETLETLTMATVCLFSAQPQLADQVPPLGHLPKVIQAMNHRNNAIPKSAIRVIHVLSDNE
IRESfinder result
IRESfinder score
0.560947347
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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