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mmu_circUblcp1_393
Basic information of circular RNA
PanCircBase ID:
mmu_circUblcp1_393
mm39_Chr. Position ID:
chr11|44354484|44356914|-
Gene name:
Ublcp1
Transcript:
ENSMUST00000102795.4
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
6,5,4,3
Exon/intron offsets:
0,1707,1900,2338
Genomic length:
2430
Exon/intron sizes in nt:
99,116,86,92
Flanking exon/introns:
chr11:44352183-44354484|chr11:44356914-44357641
Splice length:
393
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GCAAACCTGCAGAAAATGATGTTAAGCTTGGAGCTCTCAAACTGAAACCAAATACTAAAATCATGATGATGGGAACTCGAGAGGAGAGCTTGGAAGATGTCTTATGTCCTCCTCCTGACAATGATGATGTCATCAATGATTTTGACATTGAAGATGAAGTAGTTGAAGTAGAAAATAGGGAGGAAAACCTCCTGAAGGTCTCTCGCAGAGTCAAGGAGTACAAGGTGGAGGTGCTGAACCCTCCCCGGGAGGGCAAGAAGCTCCTGGTGCTGGATGTTGACTATACACTGTTTGATCATAGGTCTTGTGCAGAGACTGGGGTAGAGCTAATGAGACCATATCTTCATGAATTTCTAACATCTGCATATGAAGATTATGACATTGTTATTTGGT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGTGCAGAGACTGGGGTAGA
59.89
AGCTCTCCTCTCGAGTTCCC
60.4
178
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGTGCAGAGACTGGGGTAGA
59.89
GCTCTCCTCTCGAGTTCCCA
60.68
177
PCR template sequence:
GATCATAGGTCTTGTGCAGAGACTGGGGTAGAGCTAATGAGACCATATCTTCATGAATTTCTAACATCTGCATATGAAGATTATGACATTGTTATTTGGTGCAAACCTGCAGAAAATGATGTTAAGCTTGGAGCTCTCAAACTGAAACCAAATACTAAAATCATGATGATGGGAACTCGAGAGGAGAGCTTGGAAGATGT
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-192-5p(1), mmu-miR-215-5p(1), mmu-miR-29b-2-5p(1), mmu-miR-452-3p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ATTGTTATTTGGTGCAAACCTGCAGA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCUBLCP1_393_ORF_1
1.1359
0.320707031
0.967058338
723
ORF sequence:
ATGATGATGGGAACTCGAGAGGAGAGCTTGGAAGATGTCTTATGTCCTCCTCCTGACAATGATGATGTCATCAATGATTTTGACATTGAAGATGAAGTAGTTGAAGTAGAAAATAGGGAGGAAAACCTCCTGAAGGTCTCTCGCAGAGTCAAGGAGTACAAGGTGGAGGTGCTGAACCCTCCCCGGGAGGGCAAGAAGCTCCTGGTGCTGGATGTTGACTATACACTGTTTGATCATAGGTCTTGTGCAGAGACTGGGGTAGAGCTAATGAGACCATATCTTCATGAATTTCTAACATCTGCATATGAAGATTATGACATTGTTATTTGGTGCAAACCTGCAGAAAATGATGTTAAGCTTGGAGCTCTCAAACTGAAACCAAATACTAAAATCATGATGATGGGAACTCGAGAGGAGAGCTTGGAAGATGTCTTATGTCCTCCTCCTGACAATGATGATGTCATCAATGATTTTGACATTGAAGATGAAGTAGTTGAAGTAGAAAATAGGGAGGAAAACCTCCTGAAGGTCTCTCGCAGAGTCAAGGAGTACAAGGTGGAGGTGCTGAACCCTCCCCGGGAGGGCAAGAAGCTCCTGGTGCTGGATGTTGACTATACACTGTTTGATCATAGGTCTTGTGCAGAGACTGGGGTAGAGCTAATGAGACCATATCTTCATGAATTTCTAACATCTGCATATGAAGATTATGACATTGTTATTTGG
Peptide sequence:
MMMGTREESLEDVLCPPPDNDDVINDFDIEDEVVEVENREENLLKVSRRVKEYKVEVLNPPREGKKLLVLDVDYTLFDHRSCAETGVELMRPYLHEFLTSAYEDYDIVIWCKPAENDVKLGALKLKPNTKIMMMGTREESLEDVLCPPPDNDDVINDFDIEDEVVEVENREENLLKVSRRVKEYKVEVLNPPREGKKLLVLDVDYTLFDHRSCAETGVELMRPYLHEFLTSAYEDYDIVIW
IRESfinder result
IRESfinder score
0.402801858
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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