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mmu_circPsme4_713
Basic information of circular RNA
PanCircBase ID:
mmu_circPsme4_713
mm39_Chr. Position ID:
chr11|30782133|30787491|+
Gene name:
Psme4
Transcript:
ENSMUST00000041231.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
22,23,24,25,26,27,28
Exon/intron offsets:
0,255,398,1952,2140,3202,5148
Genomic length:
5358
Exon/intron sizes in nt:
5,75,69,96,39,61,32,210
Flanking exon/introns:
chr11:30780405-30782133|chr11:30787491-30788884
Splice length:
713
Other database IDs:
circAtlas: mmu-Psme4_0135
Human Ortholog IDs:
Mature spliced Sequence:
ACCTATCCAGAGAAAACTACCGAGAAGTAATTGCTAGTGTCATAAGGAAACTTCTTAGCCACATACTTGATAATTCAGAAGATGATACCAAATCACTGTTTCTCATCATAAAGATCATTGGAGACCTTCTGCACTTCCAAGGATCTCATAAACATGAATTTGACTCTCGATGGAAAAGCTTTAACTTAGTAAAGAAATCAATGGAAAATCGGCTCCATGGAAAAAAGCAACATATCAGAGCATTACTAATTGACAGAGTGATGCTGCAGCATGAGTTGCGAACACTAACTGTTGAGGGTTGTGAGTACAAAAAAATACATCAAGATATGATCAGAGATCTTCTTCGATTATCAACAAGCTCATACAGTCAGGTCAGAAACAAAGCTCAGCAAACATTTTTTGCTGCTTTGGGGGCATATAACTTCTGTTGCAGAGATATTATCCCCTTGGTTTTGGAATTCCTACGGCCTGATAGAAAGGATGTCACACAGCAGCAGTTCAAGGGCGCCTTATATTGTCTACTTGGAAATCACAGTGGTGTGTGCCTGGCAAACCTTCATGATTGGGACTGTATTGTGCAGACCTGGCCAGCACTTGTTTCTTCAGGGCTTAGCCAAGCAATGTCACTGGAAAAGCCATCAATAGTGAGACTATTTGATGACCTTGCTGAAAAGATTCATAGACAATATGAAACAATTGGCTTGGATTTTACA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AAGCAATGTCACTGGAAAAGCC
59.96
TGACACTAGCAATTACTTCTCGGT
59.78
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGCAATGTCACTGGAAAAGCC
59.38
ATGACACTAGCAATTACTTCTCGGT
60.11
140
PCR template sequence:
CCAAGCAATGTCACTGGAAAAGCCATCAATAGTGAGACTATTTGATGACCTTGCTGAAAAGATTCATAGACAATATGAAACAATTGGCTTGGATTTTACAACCTATCCAGAGAAAACTACCGAGAAGTAATTGCTAGTGTCATAAGGAAACTTCTTAGCCACATACTTGATAATTCAGAAGATGATACCAAATCACTGTT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
10
Interacting miRNAs (#binding sites)
mmu-miR-16-5p(1), mmu-miR-15a-5p(1), mmu-miR-135a-5p(1), mmu-miR-322-5p(1), mmu-miR-15b-5p(1), mmu-miR-425-5p(1), mmu-miR-362-5p(1), mmu-miR-190b-5p(1), mmu-miR-3470b(1), mmu-miR-7a-2-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CTTGGATTTTACAACCTATCCAGAGA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPSME4_713_ORF_1
0.6776
-0.026336178
0.448785842
543
ORF sequence:
ATGGAAAATCGGCTCCATGGAAAAAAGCAACATATCAGAGCATTACTAATTGACAGAGTGATGCTGCAGCATGAGTTGCGAACACTAACTGTTGAGGGTTGTGAGTACAAAAAAATACATCAAGATATGATCAGAGATCTTCTTCGATTATCAACAAGCTCATACAGTCAGGTCAGAAACAAAGCTCAGCAAACATTTTTTGCTGCTTTGGGGGCATATAACTTCTGTTGCAGAGATATTATCCCCTTGGTTTTGGAATTCCTACGGCCTGATAGAAAGGATGTCACACAGCAGCAGTTCAAGGGCGCCTTATATTGTCTACTTGGAAATCACAGTGGTGTGTGCCTGGCAAACCTTCATGATTGGGACTGTATTGTGCAGACCTGGCCAGCACTTGTTTCTTCAGGGCTTAGCCAAGCAATGTCACTGGAAAAGCCATCAATAGTGAGACTATTTGATGACCTTGCTGAAAAGATTCATAGACAATATGAAACAATTGGCTTGGATTTTACAACCTATCCAGAGAAAACTACCGAGAAGTAA
Peptide sequence:
MENRLHGKKQHIRALLIDRVMLQHELRTLTVEGCEYKKIHQDMIRDLLRLSTSSYSQVRNKAQQTFFAALGAYNFCCRDIIPLVLEFLRPDRKDVTQQQFKGALYCLLGNHSGVCLANLHDWDCIVQTWPALVSSGLSQAMSLEKPSIVRLFDDLAEKIHRQYETIGLDFTTYPEKTTEK
IRESfinder result
IRESfinder score
0.698386978
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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