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mmu_circUsp37_645
Basic information of circular RNA
PanCircBase ID:
mmu_circUsp37_645
mm39_Chr. Position ID:
chr1|74506073|74510845|-
Gene name:
Usp37
Transcript:
ENSMUST00000044260.11
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
15,14,13,12,11
Exon/intron offsets:
0,1352,3622,4381,4640
Genomic length:
4772
Exon/intron sizes in nt:
8,01,18,19,11,24,132
Flanking exon/introns:
chr1:74500889-74506073|chr1:74510845-74514144
Splice length:
645
Other database IDs:
circAtlas: mmu-Usp37_0013
circBase: hsa_circ_0119153, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_146491
Human Ortholog IDs:
Mature spliced Sequence:
ATTCTCCAACTTGGGAAATACATGCTATATGAATGCTATCTTACAATCTCTGTTTTCACTCCAGTCATTTGCAAATGATTTGCTTAAACAAAGTATCCCATGGAAGAAAATTCCATTCAATGCACTTATCAGACGCTTTGCAAACCTGCTTATTAAAAAAGATATTTGTAATTCAGAGACCAAAAAAGAACTACTTAAGAAGGTTAAAAATGCTATTTCAGCTACTGCAGAGAGATTCTCTGGCTATGTCCAAAATGATGCTCATGAATTTTTAAGTCAGTGCTTAGATCAGCTAAAGGAGGATATGGAAAAACTGAATAAAACTTGGAAGACAGAACCTGTCCTTGGAGAAGAAAATTTGCCAGATACATCAGCTACCAAAGTGTTCACGTGCCCTGTTATTACAAACTTGGAGTTTGAAGTTCAGCACTCCATTATCTGTAAAGCATGTGGAGAAACTATTCCCAAAAGAGAACAGTTCAATGACCTCTCCATTGACCTTCCTCGGAGGAAAAAGCCACTCCCTCCTCGTTCAATCCAAGATTCTCTCGATCTTTTCTTTAGGGCAGAAGAACTTGAATACTCATGTGAAAAGTGTGGTGGAAAATGTGCTCTTGTCAGGCACAAATTTAACAGGCTGCCCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACTCATGTGAAAAGTGTGGTGG
59.05
CATTTGCAAATGACTGGAGTGA
57.49
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTCATGTGAAAAGTGTGGTGGA
58.79
CATTTGCAAATGACTGGAGTGA
57.49
140
PCR template sequence:
CTCTCGATCTTTTCTTTAGGGCAGAAGAACTTGAATACTCATGTGAAAAGTGTGGTGGAAAATGTGCTCTTGTCAGGCACAAATTTAACAGGCTGCCCAGATTCTCCAACTTGGGAAATACATGCTATATGAATGCTATCTTACAATCTCTGTTTTCACTCCAGTCATTTGCAAATGATTTGCTTAAACAAAGTATCCCA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-135a-5p(1), mmu-miR-33-5p(1), mmu-miR-467b-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ACAGGCTGCCCAGATTCTCCAACTTG
siRNA sets
TTGGAGAATCTGGGCAGCC, TGGAGAATCTGGGCAGCCT, CAAGTTGGAGAATCTGGGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCUSP37_645_ORF_1
0.7663
-0.033227004
0.993991146
1260
ORF sequence:
ATGAATGCTATCTTACAATCTCTGTTTTCACTCCAGTCATTTGCAAATGATTTGCTTAAACAAAGTATCCCATGGAAGAAAATTCCATTCAATGCACTTATCAGACGCTTTGCAAACCTGCTTATTAAAAAAGATATTTGTAATTCAGAGACCAAAAAAGAACTACTTAAGAAGGTTAAAAATGCTATTTCAGCTACTGCAGAGAGATTCTCTGGCTATGTCCAAAATGATGCTCATGAATTTTTAAGTCAGTGCTTAGATCAGCTAAAGGAGGATATGGAAAAACTGAATAAAACTTGGAAGACAGAACCTGTCCTTGGAGAAGAAAATTTGCCAGATACATCAGCTACCAAAGTGTTCACGTGCCCTGTTATTACAAACTTGGAGTTTGAAGTTCAGCACTCCATTATCTGTAAAGCATGTGGAGAAACTATTCCCAAAAGAGAACAGTTCAATGACCTCTCCATTGACCTTCCTCGGAGGAAAAAGCCACTCCCTCCTCGTTCAATCCAAGATTCTCTCGATCTTTTCTTTAGGGCAGAAGAACTTGAATACTCATGTGAAAAGTGTGGTGGAAAATGTGCTCTTGTCAGGCACAAATTTAACAGGCTGCCCAGATTCTCCAACTTGGGAAATACATGCTATATGAATGCTATCTTACAATCTCTGTTTTCACTCCAGTCATTTGCAAATGATTTGCTTAAACAAAGTATCCCATGGAAGAAAATTCCATTCAATGCACTTATCAGACGCTTTGCAAACCTGCTTATTAAAAAAGATATTTGTAATTCAGAGACCAAAAAAGAACTACTTAAGAAGGTTAAAAATGCTATTTCAGCTACTGCAGAGAGATTCTCTGGCTATGTCCAAAATGATGCTCATGAATTTTTAAGTCAGTGCTTAGATCAGCTAAAGGAGGATATGGAAAAACTGAATAAAACTTGGAAGACAGAACCTGTCCTTGGAGAAGAAAATTTGCCAGATACATCAGCTACCAAAGTGTTCACGTGCCCTGTTATTACAAACTTGGAGTTTGAAGTTCAGCACTCCATTATCTGTAAAGCATGTGGAGAAACTATTCCCAAAAGAGAACAGTTCAATGACCTCTCCATTGACCTTCCTCGGAGGAAAAAGCCACTCCCTCCTCGTTCAATCCAAGATTCTCTCGATCTTTTCTTTAGGGCAGAAGAACTTGAATACTCATGTGAAAAGTGTGGTGGAAAATGTGCTCTTGTCAGGCACAAATTTAACAGGCTGCCC
Peptide sequence:
MNAILQSLFSLQSFANDLLKQSIPWKKIPFNALIRRFANLLIKKDICNSETKKELLKKVKNAISATAERFSGYVQNDAHEFLSQCLDQLKEDMEKLNKTWKTEPVLGEENLPDTSATKVFTCPVITNLEFEVQHSIICKACGETIPKREQFNDLSIDLPRRKKPLPPRSIQDSLDLFFRAEELEYSCEKCGGKCALVRHKFNRLPRFSNLGNTCYMNAILQSLFSLQSFANDLLKQSIPWKKIPFNALIRRFANLLIKKDICNSETKKELLKKVKNAISATAERFSGYVQNDAHEFLSQCLDQLKEDMEKLNKTWKTEPVLGEENLPDTSATKVFTCPVITNLEFEVQHSIICKACGETIPKREQFNDLSIDLPRRKKPLPPRSIQDSLDLFFRAEELEYSCEKCGGKCALVRHKFNRLP
IRESfinder result
IRESfinder score
0.825692386
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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