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mmu_circJak2_388
Basic information of circular RNA
PanCircBase ID:
mmu_circJak2_388
mm39_Chr. Position ID:
chr19|29248750|29254295|+
Gene name:
Jak2
Transcript:
ENSMUST00000025705.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
3,4,5
Exon/intron offsets:
0,3651,5399
Genomic length:
5545
Exon/intron sizes in nt:
12,41,18,146
Flanking exon/introns:
chr19:29239833-29248750|chr19:29254295-29259716
Splice length:
388
Other database IDs:
CIRCpedia: MMU_CIRCpedia_15407, circAtlas: mmu-Jak2_0014
Human Ortholog IDs:
Mature spliced Sequence:
GTATTACGCCTGTGTATCATAATATGTTTGCGTTAATGAGTGAAACCGAAAGGATCTGGTACCCACCCAATCATGTCTTCCACATAGACGAGTCAACCAGGCATGACATACTCTACAGGATAAGGTTCTACTTCCCTCATTGGTACTGTAGTGGCAGCAGCAGAACCTACAGATACGGAGTGTCCCGTGGGGCTGAAGCTCCTCTGCTTGATGACTTTGTCATGTCTTACCTTTTTGCTCAGTGGCGGCATGATTTTGTTCACGGATGGATAAAAGTACCTGTGACTCATGAAACTCAGGAAGAGTGTCTTGGGATGGCGGTGTTAGACATGATGAGAATAGCTAAGGAGAAAGACCAGACTCCACTGGCTGTCTATAACTCTGTCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TTGGGATGGCGGTGTTAGAC
60.04
TGGAAGACATGATTGGGTGGG
59.99
161
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GTCTTGGGATGGCGGTGTTA
60.04
TGGAAGACATGATTGGGTGGG
59.99
164
PCR template sequence:
ATGAAACTCAGGAAGAGTGTCTTGGGATGGCGGTGTTAGACATGATGAGAATAGCTAAGGAGAAAGACCAGACTCCACTGGCTGTCTATAACTCTGTCAGGTATTACGCCTGTGTATCATAATATGTTTGCGTTAATGAGTGAAACCGAAAGGATCTGGTACCCACCCAATCATGTCTTCCACATAGACGAGTCAACCAG
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-7b-5p(1), mmu-miR-298-5p(1), mmu-miR-101b-3p(1), mmu-miR-7a-5p(1), mmu-miR-139-5p(1), mmu-miR-29b-2-5p(1), mmu-miR-3065-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ATAACTCTGTCAGGTATTACGCCTGT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCJAK2_388_ORF_1
0.7064
0.069495395
0.295094209
387
ORF sequence:
ATGTTTGCGTTAATGAGTGAAACCGAAAGGATCTGGTACCCACCCAATCATGTCTTCCACATAGACGAGTCAACCAGGCATGACATACTCTACAGGATAAGGTTCTACTTCCCTCATTGGTACTGTAGTGGCAGCAGCAGAACCTACAGATACGGAGTGTCCCGTGGGGCTGAAGCTCCTCTGCTTGATGACTTTGTCATGTCTTACCTTTTTGCTCAGTGGCGGCATGATTTTGTTCACGGATGGATAAAAGTACCTGTGACTCATGAAACTCAGGAAGAGTGTCTTGGGATGGCGGTGTTAGACATGATGAGAATAGCTAAGGAGAAAGACCAGACTCCACTGGCTGTCTATAACTCTGTCAGGTATTACGCCTGTGTATCATAA
Peptide sequence:
MFALMSETERIWYPPNHVFHIDESTRHDILYRIRFYFPHWYCSGSSRTYRYGVSRGAEAPLLDDFVMSYLFAQWRHDFVHGWIKVPVTHETQEECLGMAVLDMMRIAKEKDQTPLAVYNSVRYYACVS
IRESfinder result
IRESfinder score
0.443017452
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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