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mmu_circUsp34_853
Basic information of circular RNA
PanCircBase ID:
mmu_circUsp34_853
mm39_Chr. Position ID:
chr11|23313057|23314512|+
Gene name:
Usp34
Transcript:
ENSMUST00000180046.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
14,15
Exon/intron offsets:
0,733
Genomic length:
1455
Exon/intron sizes in nt:
1,31,722
Flanking exon/introns:
chr11:23312612-23313057|chr11:23314512-23317338
Splice length:
853
Other database IDs:
circAtlas: mmu-Usp34_0132
Human Ortholog IDs:
Mature spliced Sequence:
GGTCCCCAGCAGCGAGTCCTCAAAGTAGTGATAACAGTGACACACATCAGAGTGGAGCCAGTGACATTGAAATGGATGAGCAGCTTATTAATAGAAATAAACATGTGCAGCAGCGACTGTCTGACACTGAGGAATCCATGCAAGGAAGTTCTGATGAAACTGCCAACAGTGGTGAAGATGGAAGCAGTGGCCCTGGTAGCAGTAGTGGGCATAGTGATGGATCTAGCAATGAAGTTAATTCAAGCCATGCAAGCCAGTCTGCTGGGAGCCCTGGAAGTGAGGTGCAATCAGAAGACATTGCAGACATCGAGGCCCTTAAAGAAGAAGAGGAAGAGGAGGAGGAAGAAGAAGAAGAGGAAGAGGAAGAAGATGATGAAGAAGAAGAAGATGAAGAAGAAGATGATGATGACGACGATGATCATGGTCACAATCCTGCCAAAAATACTTGTGGTACAGAACTTCGAAACAGAAAGTTAGAAAATCCAGCAGGCATTTGCTTGGGGGAATCCCAAGGCACATCTGAAAGGAATGGGACAAATAGTGGAACTGGAAAGGACCTGGTTTTTAATACTGAGCCATTGCCATCTGTAGATAACCGAATACGAATGCTAGATGCCTGTGCTCACTCTGAAGACCCAGAACATGGCATTTCAGGGGAAGTGAGTTCTGCTCACTTAGCACAAGGTTCTCAGGAGGCTTGTATCACACGAAGTGGGGACTTCCTTGGGGAGACTATTGGGAATGAGTTGTTTAATTGTCGGCAGTTTATTGGTCCACAGCATCACCACCACCACCACCACCACCACCACCATCATCACCATCACCACCACCACCACCACCACCACCACGATGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ATTGGTCCACAGCATCACCA
59.59
TGGCTCCACTCTGATGTGTG
59.68
146
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ATTGGTCCACAGCATCACCA
59.59
GGCTCCACTCTGATGTGTGT
59.68
145
PCR template sequence:
ATTGTCGGCAGTTTATTGGTCCACAGCATCACCACCACCACCACCACCACCACCACCATCATCACCATCACCACCACCACCACCACCACCACCACGATGGGGTCCCCAGCAGCGAGTCCTCAAAGTAGTGATAACAGTGACACACATCAGAGTGGAGCCAGTGACATTGAAATGGATGAGCAGCTTATTAATAGAAATAA
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-miR-32-5p(1), mmu-miR-92a-3p(1), mmu-miR-25-3p(1), mmu-miR-24-3p(1), mmu-miR-149-5p(1), mmu-miR-22-3p(1), mmu-miR-758-3p(1), mmu-miR-466a-5p(1), mmu-miR-466p-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ACCACCACGATGGGGTCCCCAGCAGC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCUSP34_853_ORF_1
1.2077
0.263626915
0.993241016
963
ORF sequence:
ATGAGTTGTTTAATTGTCGGCAGTTTATTGGTCCACAGCATCACCACCACCACCACCACCACCACCACCATCATCACCATCACCACCACCACCACCACCACCACCACGATGGGGTCCCCAGCAGCGAGTCCTCAAAGTAGTGATAACAGTGACACACATCAGAGTGGAGCCAGTGACATTGAAATGGATGAGCAGCTTATTAATAGAAATAAACATGTGCAGCAGCGACTGTCTGACACTGAGGAATCCATGCAAGGAAGTTCTGATGAAACTGCCAACAGTGGTGAAGATGGAAGCAGTGGCCCTGGTAGCAGTAGTGGGCATAGTGATGGATCTAGCAATGAAGTTAATTCAAGCCATGCAAGCCAGTCTGCTGGGAGCCCTGGAAGTGAGGTGCAATCAGAAGACATTGCAGACATCGAGGCCCTTAAAGAAGAAGAGGAAGAGGAGGAGGAAGAAGAAGAAGAGGAAGAGGAAGAAGATGATGAAGAAGAAGAAGATGAAGAAGAAGATGATGATGACGACGATGATCATGGTCACAATCCTGCCAAAAATACTTGTGGTACAGAACTTCGAAACAGAAAGTTAGAAAATCCAGCAGGCATTTGCTTGGGGGAATCCCAAGGCACATCTGAAAGGAATGGGACAAATAGTGGAACTGGAAAGGACCTGGTTTTTAATACTGAGCCATTGCCATCTGTAGATAACCGAATACGAATGCTAGATGCCTGTGCTCACTCTGAAGACCCAGAACATGGCATTTCAGGGGAAGTGAGTTCTGCTCACTTAGCACAAGGTTCTCAGGAGGCTTGTATCACACGAAGTGGGGACTTCCTTGGGGAGACTATTGGGAATGAGTTGTTTAATTGTCGGCAGTTTATTGGTCCACAGCATCACCACCACCACCACCACCACCACCACCATCATCACCATCACCACCACCACCACCACCACCACCACGAT
Peptide sequence:
MSCLIVGSLLVHSITTTTTTTTTIITITTTTTTTTTMGSPAASPQSSDNSDTHQSGASDIEMDEQLINRNKHVQQRLSDTEESMQGSSDETANSGEDGSSGPGSSSGHSDGSSNEVNSSHASQSAGSPGSEVQSEDIADIEALKEEEEEEEEEEEEEEEEDDEEEEDEEEDDDDDDDHGHNPAKNTCGTELRNRKLENPAGICLGESQGTSERNGTNSGTGKDLVFNTEPLPSVDNRIRMLDACAHSEDPEHGISGEVSSAHLAQGSQEACITRSGDFLGETIGNELFNCRQFIGPQHHHHHHHHHHHHHHHHHHHHHHHD
IRESfinder result
IRESfinder score
0.471998527
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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