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mmu_circUbr2_384
Basic information of circular RNA
PanCircBase ID:
mmu_circUbr2_384
mm39_Chr. Position ID:
chr17|47297570|47302031|-
Gene name:
Ubr2
Transcript:
ENSMUST00000113337.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
6,5,4
Exon/intron offsets:
0,2008,4347
Genomic length:
4461
Exon/intron sizes in nt:
13,91,31,114
Flanking exon/introns:
chr17:47296977-47297570|chr17:47302031-47303916
Splice length:
384
Other database IDs:
circAtlas: mmu-Ubr2_0061
Human Ortholog IDs:
Mature spliced Sequence:
ATGACCACATCGGGAGGAGGGGGCTTCTGTGACTGTGGTGACACTGAGGCGTGGAAAGAGGGACCTTACTGCCAGAAGCACAAGCTCAGCAGCTCTGAAGTTGTGGAGGAGGAGGATCCTCTTGTGCATCTATCAGAAGATGTGATCGCCAGAACTTACAACATTTTTGCTATTATGTTTCGATATGCAGTAGATATACTGACCTGGGAAAAAGAAAGTGAATTGCCTGAAGACTTAGAAGTGGCAGAGAAGAGTGACACCTACTACTGCATGCTGTTTAATGATGAGGTTCACACCTATGAGCAAGTCATTTATACCCTTCAGAAAGCTGTGAACTGTACACAGAAGGAAGCCATTGGCTTTGCAACTACAGTTGATCGAGAT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACCCTTCAGAAAGCTGTGAACT
59.83
GCTTCTGGCAGTAAGGTCCC
60.39
148
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACCCTTCAGAAAGCTGTGAACT
59.83
TCTGGCAGTAAGGTCCCTCT
59.59
145
PCR template sequence:
TGAGGTTCACACCTATGAGCAAGTCATTTATACCCTTCAGAAAGCTGTGAACTGTACACAGAAGGAAGCCATTGGCTTTGCAACTACAGTTGATCGAGATATGACCACATCGGGAGGAGGGGGCTTCTGTGACTGTGGTGACACTGAGGCGTGGAAAGAGGGACCTTACTGCCAGAAGCACAAGCTCAGCAGCTCTGAAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-135a-5p(1), mmu-miR-494-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AGTTGATCGAGATATGACCACATCGG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCUBR2_384_ORF_1
1.1695
0.301886471
0.975641518
768
ORF sequence:
ATGACCACATCGGGAGGAGGGGGCTTCTGTGACTGTGGTGACACTGAGGCGTGGAAAGAGGGACCTTACTGCCAGAAGCACAAGCTCAGCAGCTCTGAAGTTGTGGAGGAGGAGGATCCTCTTGTGCATCTATCAGAAGATGTGATCGCCAGAACTTACAACATTTTTGCTATTATGTTTCGATATGCAGTAGATATACTGACCTGGGAAAAAGAAAGTGAATTGCCTGAAGACTTAGAAGTGGCAGAGAAGAGTGACACCTACTACTGCATGCTGTTTAATGATGAGGTTCACACCTATGAGCAAGTCATTTATACCCTTCAGAAAGCTGTGAACTGTACACAGAAGGAAGCCATTGGCTTTGCAACTACAGTTGATCGAGATATGACCACATCGGGAGGAGGGGGCTTCTGTGACTGTGGTGACACTGAGGCGTGGAAAGAGGGACCTTACTGCCAGAAGCACAAGCTCAGCAGCTCTGAAGTTGTGGAGGAGGAGGATCCTCTTGTGCATCTATCAGAAGATGTGATCGCCAGAACTTACAACATTTTTGCTATTATGTTTCGATATGCAGTAGATATACTGACCTGGGAAAAAGAAAGTGAATTGCCTGAAGACTTAGAAGTGGCAGAGAAGAGTGACACCTACTACTGCATGCTGTTTAATGATGAGGTTCACACCTATGAGCAAGTCATTTATACCCTTCAGAAAGCTGTGAACTGTACACAGAAGGAAGCCATTGGCTTTGCAACTACAGTTGATCGAGAT
Peptide sequence:
MTTSGGGGFCDCGDTEAWKEGPYCQKHKLSSSEVVEEEDPLVHLSEDVIARTYNIFAIMFRYAVDILTWEKESELPEDLEVAEKSDTYYCMLFNDEVHTYEQVIYTLQKAVNCTQKEAIGFATTVDRDMTTSGGGGFCDCGDTEAWKEGPYCQKHKLSSSEVVEEEDPLVHLSEDVIARTYNIFAIMFRYAVDILTWEKESELPEDLEVAEKSDTYYCMLFNDEVHTYEQVIYTLQKAVNCTQKEAIGFATTVDRD
IRESfinder result
IRESfinder score
0.591067243
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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