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mmu_circUsp37_896
Basic information of circular RNA
PanCircBase ID:
mmu_circUsp37_896
mm39_Chr. Position ID:
chr1|74525139|74539259|-
Gene name:
Usp37
Transcript:
ENSMUST00000044260.11
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
7,6,5,4,3,2
Exon/intron offsets:
0,638,4109,6924,9649,13975
Genomic length:
14120
Exon/intron sizes in nt:
75,17,91,01,17,22,24,100
Flanking exon/introns:
chr1:74518908-74525139|chr1:74539259-74544818
Splice length:
896
Other database IDs:
circAtlas: mmu-Usp37_0030
circBase: hsa_circ_0058266, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_39718
Human Ortholog IDs:
Mature spliced Sequence:
CTGAGTTGATGACTGCTGGAGGGACCACTGGTAGAGCCGAAGAATATGAATAGTTTCTCAAGAAAAGTACATTACTTTTGGCACAAGAAGCAGAATAACTGTGAATTGTTATCACGTGGAATTTTTCAGTAAAAATCACTGAAAAAATTCGTCAGGTGAACATATATTTTTGCTTTTTAATTTGGTTAAAAGCAATTTATTTTTAAAGAAACTATGTCTCCCCTGAAGATCTATGGTCCTATCAGAATTCGAAGCATGCAGACTGGGATTACAAAGTGGAAAGAAGGGTCCTTTGAAATTGTGGAAAAAGACAATAGAGTCAGCCTGCTCGTTCACTACAACACTGGAGGAATTCCAAGAGTGTTTCAGCTAAGTCATAACATTAAAAATGTGGTACTACGACCCAGTGGAATAAAACAAAGCCGCCTAATGTTGACTTTACAAGATAACAGCTTCTTGTCTATTGACAAAGTACCAAGTAAGGATGCAGAGGAAATGAGGTTGTTCCTAGATGCCGTCCATCAAAACAGACTTCATGCAGCTATGAAAGCTTCTCAAGGTTCTGGTAGTTTTGGAACTATTCTGGGCAGCAGGACCTCTCAGAAGGAAACTAACAGACAGCTTTCTTACTCAGACAATCAGGCCTCTTCAAAAAGAGGAAGTTTAGAAACTAAAGATGAAATTCCATTTCGAAAAGTTCTTGGCAGTCCTGGTAGAGGACCAATTAAGACTGTAACTGGAGGTGGAATGGCTGTTACCCGGACTATTCCTTCTTTGACGCTGACATCAACACCTCTTAGATCAGGATTATTAGAAAACCGCACTGAAAAGAGGAAAAGAATGTTATCTGGTTCAGAGCTGACTGAAGATTACCCTAAGGAAAATGACTCATCATC
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCTGGTTCAGAGCTGACTGA
58
TCTGCTTCTTGTGCCAAAAGT
58.62
144
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACCGCACTGAAAAGAGGAAA
57.66
TCTGCTTCTTGTGCCAAAAGT
58.62
173
PCR template sequence:
TTAGATCAGGATTATTAGAAAACCGCACTGAAAAGAGGAAAAGAATGTTATCTGGTTCAGAGCTGACTGAAGATTACCCTAAGGAAAATGACTCATCATCCTGAGTTGATGACTGCTGGAGGGACCACTGGTAGAGCCGAAGAATATGAATAGTTTCTCAAGAAAAGTACATTACTTTTGGCACAAGAAGCAGAATAACT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-27b-3p(1), mmu-miR-194-5p(1), mmu-miR-680(1)
siRNAs for circular RNA silencing
Junction sequence
ATGACTCATCATCCTGAGTTGATGAC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCUSP37_896_ORF_1
0.8712
0.032719452
0.806357956
687
ORF sequence:
ATGTCTCCCCTGAAGATCTATGGTCCTATCAGAATTCGAAGCATGCAGACTGGGATTACAAAGTGGAAAGAAGGGTCCTTTGAAATTGTGGAAAAAGACAATAGAGTCAGCCTGCTCGTTCACTACAACACTGGAGGAATTCCAAGAGTGTTTCAGCTAAGTCATAACATTAAAAATGTGGTACTACGACCCAGTGGAATAAAACAAAGCCGCCTAATGTTGACTTTACAAGATAACAGCTTCTTGTCTATTGACAAAGTACCAAGTAAGGATGCAGAGGAAATGAGGTTGTTCCTAGATGCCGTCCATCAAAACAGACTTCATGCAGCTATGAAAGCTTCTCAAGGTTCTGGTAGTTTTGGAACTATTCTGGGCAGCAGGACCTCTCAGAAGGAAACTAACAGACAGCTTTCTTACTCAGACAATCAGGCCTCTTCAAAAAGAGGAAGTTTAGAAACTAAAGATGAAATTCCATTTCGAAAAGTTCTTGGCAGTCCTGGTAGAGGACCAATTAAGACTGTAACTGGAGGTGGAATGGCTGTTACCCGGACTATTCCTTCTTTGACGCTGACATCAACACCTCTTAGATCAGGATTATTAGAAAACCGCACTGAAAAGAGGAAAAGAATGTTATCTGGTTCAGAGCTGACTGAAGATTACCCTAAGGAAAATGACTCATCATCCTGA
Peptide sequence:
MSPLKIYGPIRIRSMQTGITKWKEGSFEIVEKDNRVSLLVHYNTGGIPRVFQLSHNIKNVVLRPSGIKQSRLMLTLQDNSFLSIDKVPSKDAEEMRLFLDAVHQNRLHAAMKASQGSGSFGTILGSRTSQKETNRQLSYSDNQASSKRGSLETKDEIPFRKVLGSPGRGPIKTVTGGGMAVTRTIPSLTLTSTPLRSGLLENRTEKRKRMLSGSELTEDYPKENDSSS
IRESfinder result
IRESfinder score
0.716422663
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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