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mmu_circSetbp1_684
Basic information of circular RNA
PanCircBase ID:
mmu_circSetbp1_684
mm39_Chr. Position ID:
chr18|78967203|79130395|-
Gene name:
Setbp1
Transcript:
ENSMUST00000025430.11
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
3,2
Exon/intron offsets:
0,162562
Genomic length:
163192
Exon/intron sizes in nt:
54,630
Flanking exon/introns:
chr18:78903146-78967203|chr18:79130395-79152402
Splice length:
684
Other database IDs:
CIRCpedia: MMU_CIRCpedia_30018, circAtlas: mmu-Setbp1_0005
Human Ortholog IDs:
Mature spliced Sequence:
ATCTGACCCCTTCTGAGGGCTTCGCCACATCTCCGTTCTTGGGACGTTGAACCCTACAGCTGGACGACTTTGTTCTTGGAATTTTGGGTTTCTTCTCTTTTGACCCTTTCTGCTCCCCTTCATCCCTTCCCTGTCCTGAGAACTCCTGAAGACTGTAGGATTATCATGGAGCCCAGGGAAATGTTAAGCAGCTGCCGGCAAAGAGGGAGTGAGTCGGAATTCCTTCAGGGCTCCTCATCCAGATCCCCACCTGCTCCTGGCTGTTCAGGAGAGCCCTTGAAAGGCATCTCTGTGGGTGGAGAACGCATGGAGCCAGAGGAGGAGGATGAATTGGGCTCAGGACGAGATGTGGATTGCAATTCTAATGCAGACAGTGAGAAATGGGTGGCTGGAGATGGCTTGGAGGAGCAGGAGTTCTCCATCAAGGAGGCCAACTTCACTGAGGGGAGCTTAAAGCTGAAGATTCAGACCACAAAGCGGGCTAAGAAACCCCCCAAAAACCTGGAGAACTATATCTGCCCACCTGAGATCAAGATCACCATAAAGCAGTCTGGGGACCAGAAGGTGTCCCGTACTGGGAAAAATAGCAAAGCGACTAAGGAAGATGAAAGAAACCACTCCAAAAAGAAGCTCCTCACAGCCGGTGACCCTACAGCCAGCGACCTCAAAGCATTTCAGACACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AAAGAAGCTCCTCACAGCCG
60.32
CCAAGAACAAAGTCGTCCAGC
59.74
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACCACTCCAAAAAGAAGCTCCT
59.82
AGTCGTCCAGCTGTAGGGTT
60.54
140
PCR template sequence:
TAGCAAAGCGACTAAGGAAGATGAAAGAAACCACTCCAAAAAGAAGCTCCTCACAGCCGGTGACCCTACAGCCAGCGACCTCAAAGCATTTCAGACACAGATCTGACCCCTTCTGAGGGCTTCGCCACATCTCCGTTCTTGGGACGTTGAACCCTACAGCTGGACGACTTTGTTCTTGGAATTTTGGGTTTCTTCTCTTT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-33-5p(1), mmu-miR-203-3p(1), mmu-miR-149-5p(1), mmu-miR-676-3p(1), mmu-miR-29b-2-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ATTTCAGACACAGATCTGACCCCTTC
siRNA sets
GAAGGGGTCAGATCTGTGT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSETBP1_684_ORF_1
0.8664
0.364427315
0.834054813
525
ORF sequence:
ATGGAGCCCAGGGAAATGTTAAGCAGCTGCCGGCAAAGAGGGAGTGAGTCGGAATTCCTTCAGGGCTCCTCATCCAGATCCCCACCTGCTCCTGGCTGTTCAGGAGAGCCCTTGAAAGGCATCTCTGTGGGTGGAGAACGCATGGAGCCAGAGGAGGAGGATGAATTGGGCTCAGGACGAGATGTGGATTGCAATTCTAATGCAGACAGTGAGAAATGGGTGGCTGGAGATGGCTTGGAGGAGCAGGAGTTCTCCATCAAGGAGGCCAACTTCACTGAGGGGAGCTTAAAGCTGAAGATTCAGACCACAAAGCGGGCTAAGAAACCCCCCAAAAACCTGGAGAACTATATCTGCCCACCTGAGATCAAGATCACCATAAAGCAGTCTGGGGACCAGAAGGTGTCCCGTACTGGGAAAAATAGCAAAGCGACTAAGGAAGATGAAAGAAACCACTCCAAAAAGAAGCTCCTCACAGCCGGTGACCCTACAGCCAGCGACCTCAAAGCATTTCAGACACAGATCTGA
Peptide sequence:
MEPREMLSSCRQRGSESEFLQGSSSRSPPAPGCSGEPLKGISVGGERMEPEEEDELGSGRDVDCNSNADSEKWVAGDGLEEQEFSIKEANFTEGSLKLKIQTTKRAKKPPKNLENYICPPEIKITIKQSGDQKVSRTGKNSKATKEDERNHSKKKLLTAGDPTASDLKAFQTQI
IRESfinder result
IRESfinder score
0.570725293
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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