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mmu_circPsme4_526
Basic information of circular RNA
PanCircBase ID:
mmu_circPsme4_526
mm39_Chr. Position ID:
chr11|30769927|30780405|+
Gene name:
Psme4
Transcript:
ENSMUST00000041231.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
18,19,20,21
Exon/intron offsets:
0,988,3131,10422
Genomic length:
10478
Exon/intron sizes in nt:
216,158,96,56
Flanking exon/introns:
chr11:30769071-30769927|chr11:30780405-30782133
Splice length:
526
Other database IDs:
circAtlas: mmu-Psme4_0117
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
ATTACTCGTGTAGACGGGAAGAAGTTACTTCTGTATAGGGAGCAGCTTGTAAAGATTCTCCAGCGAACCTTACACCTGACCTGTAAGCAGGGCTACACGCTGTCTTGCAACCTTCTGCATCATCTTCTTCGTTCTACCACACTAATCTACCCTACAGAGTACTGCAGTGTTCCGGGGGGCTTTAACAAGCCGCCTTCTGAATACTTCCCTGTCAAGGACTGGGGTAAGCCTGGAGATTTGTGGAATCTGGGGATCCAGTGGCATGTTCCTTCTTCAGAAGAAGTCTCTTTTGCCTTCTATTTGTTAGACTCCTTTCTTCAGCCTGAGCTTATCAAACTCCAGTGTTGTGGAGATGGAGAACTTGAAATGTCTAGAGATGATATTCTACAGAGTCTGACTATAGTACACAGCTGCTTGATTGGTTCAGGGAACCTTCTACCTCCATTGAAAGGAGAGGCAGTTACTAACTTGGTACCAAGTATGGTCTCCTTAGAGGAAACAAAATTGTATACCGGACTGGAACATG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCCATTGAAAGGAGAGGCAGT
59.01
CAGGTGTAAGGTTCGCTGGA
59.68
164
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCCATTGAAAGGAGAGGCAGT
59.01
TCAGGTGTAAGGTTCGCTGG
59.68
165
PCR template sequence:
GGGAACCTTCTACCTCCATTGAAAGGAGAGGCAGTTACTAACTTGGTACCAAGTATGGTCTCCTTAGAGGAAACAAAATTGTATACCGGACTGGAACATGATTACTCGTGTAGACGGGAAGAAGTTACTTCTGTATAGGGAGCAGCTTGTAAAGATTCTCCAGCGAACCTTACACCTGACCTGTAAGCAGGGCTACACGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
9
Interacting miRNAs (#binding sites)
mmu-let-7a-5p(1), mmu-miR-200a-3p(1), mmu-miR-141-3p(1), mmu-let-7e-5p(1), mmu-let-7b-5p(1), mmu-let-7c-5p(1), mmu-let-7d-5p(1), mmu-miR-98-5p(1), mmu-miR-544-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GGACTGGAACATGATTACTCGTGTAG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPSME4_526_ORF_1
0.8315
0.052449198
0.575235243
528
ORF sequence:
ATGATTACTCGTGTAGACGGGAAGAAGTTACTTCTGTATAGGGAGCAGCTTGTAAAGATTCTCCAGCGAACCTTACACCTGACCTGTAAGCAGGGCTACACGCTGTCTTGCAACCTTCTGCATCATCTTCTTCGTTCTACCACACTAATCTACCCTACAGAGTACTGCAGTGTTCCGGGGGGCTTTAACAAGCCGCCTTCTGAATACTTCCCTGTCAAGGACTGGGGTAAGCCTGGAGATTTGTGGAATCTGGGGATCCAGTGGCATGTTCCTTCTTCAGAAGAAGTCTCTTTTGCCTTCTATTTGTTAGACTCCTTTCTTCAGCCTGAGCTTATCAAACTCCAGTGTTGTGGAGATGGAGAACTTGAAATGTCTAGAGATGATATTCTACAGAGTCTGACTATAGTACACAGCTGCTTGATTGGTTCAGGGAACCTTCTACCTCCATTGAAAGGAGAGGCAGTTACTAACTTGGTACCAAGTATGGTCTCCTTAGAGGAAACAAAATTGTATACCGGACTGGAACAT
Peptide sequence:
MITRVDGKKLLLYREQLVKILQRTLHLTCKQGYTLSCNLLHHLLRSTTLIYPTEYCSVPGGFNKPPSEYFPVKDWGKPGDLWNLGIQWHVPSSEEVSFAFYLLDSFLQPELIKLQCCGDGELEMSRDDILQSLTIVHSCLIGSGNLLPPLKGEAVTNLVPSMVSLEETKLYTGLEH
IRESfinder result
IRESfinder score
0.815229938
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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