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mmu_circUvssa_552
Basic information of circular RNA
PanCircBase ID:
mmu_circUvssa_552
mm39_Chr. Position ID:
chr5|33536569|33546180|+
Gene name:
Uvssa
Transcript:
ENSMUST00000087864.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
2,3,4
Exon/intron offsets:
0,8430,9490
Genomic length:
9611
Exon/intron sizes in nt:
10,03,31,121
Flanking exon/introns:
chr5:33536346-33536569|chr5:33546180-33546985
Splice length:
552
Other database IDs:
circAtlas: mmu-Uvssa_0001
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_102585
Human Ortholog IDs:
Mature spliced Sequence:
ATATGGATCAGAAACTTTCACAGTTGATAGAGGAGCTCACAACTTCAGGAGAATCCCAACTCAATGCTCAGAAAATGAAGGAACTGAAGAAAATTTGCAAGTCTTCCGAGGAGCAGCTGAGCCATGCCTACCGCCTGCTGATCACACAGCTGACCCAGGGCCATGCCGAGATCCGCCTCTCGGCCTTCCAGATCGTGGATGAGCTCTTCACCCGCTCTCATCAGTTCAGAATGCTGCTTGTTTCTGACTTCCAGGAATTCCTCGAGCTCACACTGGGCACAGATAGTGACCGTCCCCTGCCACCCCCTCGGGAGGCAGCTCAGAGGCTAAGGCAGGCAGCCATGCAAGCTGTGGAAGGTTGGAATGAGAAGTTTGGGCAGGCCTATAAGAAGCTAGCCTTGGGCTACCACTTCCTAAAACACACCAAAAAGGTAGATTTTCGGGATATAAATGTTAGGACTGTGGCAGAAAGGAAGCGAGAAGAGGAGAAGCAGAAGCACCTGGATAAAATCCACAGAGAAAGTGCAGACCGGGCTAAGAGGGAAATGGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GTGGCAGAAAGGAAGCGAGA
60.32
TCCTGAAGTTGTGAGCTCCTC
59.38
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GTGGCAGAAAGGAAGCGAGA
60.32
TCTCCTGAAGTTGTGAGCTCC
59.38
143
PCR template sequence:
GTTAGGACTGTGGCAGAAAGGAAGCGAGAAGAGGAGAAGCAGAAGCACCTGGATAAAATCCACAGAGAAAGTGCAGACCGGGCTAAGAGGGAAATGGAAGATATGGATCAGAAACTTTCACAGTTGATAGAGGAGCTCACAACTTCAGGAGAATCCCAACTCAATGCTCAGAAAATGAAGGAACTGAAGAAAATTTGCAA
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-322-5p(1), mmu-miR-7a-5p(1), mmu-miR-214-3p(1), mmu-miR-541-5p(1), mmu-miR-207(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
AGGGAAATGGAAGATATGGATCAGAA
siRNA sets
ATCCATATCTTCCATTTCC, TTCTGATCCATATCTTCCA, TCCATATCTTCCATTTCCC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCUVSSA_552_ORF_1
1.2741
0.397071581
0.998732064
1101
ORF sequence:
ATGGATCAGAAACTTTCACAGTTGATAGAGGAGCTCACAACTTCAGGAGAATCCCAACTCAATGCTCAGAAAATGAAGGAACTGAAGAAAATTTGCAAGTCTTCCGAGGAGCAGCTGAGCCATGCCTACCGCCTGCTGATCACACAGCTGACCCAGGGCCATGCCGAGATCCGCCTCTCGGCCTTCCAGATCGTGGATGAGCTCTTCACCCGCTCTCATCAGTTCAGAATGCTGCTTGTTTCTGACTTCCAGGAATTCCTCGAGCTCACACTGGGCACAGATAGTGACCGTCCCCTGCCACCCCCTCGGGAGGCAGCTCAGAGGCTAAGGCAGGCAGCCATGCAAGCTGTGGAAGGTTGGAATGAGAAGTTTGGGCAGGCCTATAAGAAGCTAGCCTTGGGCTACCACTTCCTAAAACACACCAAAAAGGTAGATTTTCGGGATATAAATGTTAGGACTGTGGCAGAAAGGAAGCGAGAAGAGGAGAAGCAGAAGCACCTGGATAAAATCCACAGAGAAAGTGCAGACCGGGCTAAGAGGGAAATGGAAGATATGGATCAGAAACTTTCACAGTTGATAGAGGAGCTCACAACTTCAGGAGAATCCCAACTCAATGCTCAGAAAATGAAGGAACTGAAGAAAATTTGCAAGTCTTCCGAGGAGCAGCTGAGCCATGCCTACCGCCTGCTGATCACACAGCTGACCCAGGGCCATGCCGAGATCCGCCTCTCGGCCTTCCAGATCGTGGATGAGCTCTTCACCCGCTCTCATCAGTTCAGAATGCTGCTTGTTTCTGACTTCCAGGAATTCCTCGAGCTCACACTGGGCACAGATAGTGACCGTCCCCTGCCACCCCCTCGGGAGGCAGCTCAGAGGCTAAGGCAGGCAGCCATGCAAGCTGTGGAAGGTTGGAATGAGAAGTTTGGGCAGGCCTATAAGAAGCTAGCCTTGGGCTACCACTTCCTAAAACACACCAAAAAGGTAGATTTTCGGGATATAAATGTTAGGACTGTGGCAGAAAGGAAGCGAGAAGAGGAGAAGCAGAAGCACCTGGATAAAATCCACAGAGAAAGTGCAGACCGGGCTAAGAGGGAAATGGAA
Peptide sequence:
MDQKLSQLIEELTTSGESQLNAQKMKELKKICKSSEEQLSHAYRLLITQLTQGHAEIRLSAFQIVDELFTRSHQFRMLLVSDFQEFLELTLGTDSDRPLPPPREAAQRLRQAAMQAVEGWNEKFGQAYKKLALGYHFLKHTKKVDFRDINVRTVAERKREEEKQKHLDKIHRESADRAKREMEDMDQKLSQLIEELTTSGESQLNAQKMKELKKICKSSEEQLSHAYRLLITQLTQGHAEIRLSAFQIVDELFTRSHQFRMLLVSDFQEFLELTLGTDSDRPLPPPREAAQRLRQAAMQAVEGWNEKFGQAYKKLALGYHFLKHTKKVDFRDINVRTVAERKREEEKQKHLDKIHRESADRAKREME
IRESfinder result
IRESfinder score
0.422667204
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
RPF, cORF, m6A
mmu_circUvssa_001
Evidence
Peptide sequence:
MLGLWQKGSEKRRSRSTWIKSTEKVQTGLRGKWKIWIRNFHS*
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