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mmu_circUhrf2_529
Basic information of circular RNA
PanCircBase ID:
mmu_circUhrf2_529
mm39_Chr. Position ID:
chr19|30051293|30056047|+
Gene name:
Uhrf2
Transcript:
ENSMUST00000137368.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
5,6,7,8
Exon/intron offsets:
0,1190,4120,4646
Genomic length:
4754
Exon/intron sizes in nt:
1,10,18,71,24,108
Flanking exon/introns:
chr19:30048861-30051293|chr19:30056047-30057238
Splice length:
529
Other database IDs:
circAtlas: mmu-Uhrf2_0008
circBase: hsa_circ_0008613, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_64270
Human Ortholog IDs:
Mature spliced Sequence:
GGGCTCTGAAGGCACATTAAATGACTGCCGAGTGATGTCTGTAGATGAAATCTTCAAGATTGAGAAGCCTGGAGCCCATCCCATTTCCTTTGCAGATGGAAAGTTTTTAAGGAAAAATGACCCTGAATGTGACCTGTGTGGTGGAGACCCAGATAAGACCTGTCACATGTGTTCGTGTCATAAGTGTGGAGAGAAGCGGGACCCCAACATGCAGCTGCTGTGTGACGAGTGCAATATGGCCTATCACATTTACTGCCTGAGCCCACCTCTGGACAAAGTCCCGGAAGAGGAATACTGGTATTGTCCTTCCTGTAAAACTGACTCCAGTGAGGTGGTAAAGGCTGGAGAGAGACTCAAGCTGAGTAAGAAGAAAGCGAAGATGCCCTCAGCCAGTACTGAGAGCCGGAGGGACTGGGGCAGGGGAATGGCTTGTGTTGGTCGTACAAAAGAATGTACTATTGTCCCTTCAAATCATTATGGACCAATCCCTGGTATTCCTGTTGGATCAACTTGGAGATTCAGAGTTCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CAATCCCTGGTATTCCTGTTGGA
60.05
GCAAAGGAAATGGGATGGGC
59.82
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CAATCCCTGGTATTCCTGTTGG
58.71
GCAAAGGAAATGGGATGGGC
59.82
140
PCR template sequence:
TTGTGTTGGTCGTACAAAAGAATGTACTATTGTCCCTTCAAATCATTATGGACCAATCCCTGGTATTCCTGTTGGATCAACTTGGAGATTCAGAGTTCAGGGGCTCTGAAGGCACATTAAATGACTGCCGAGTGATGTCTGTAGATGAAATCTTCAAGATTGAGAAGCCTGGAGCCCATCCCATTTCCTTTGCAGATGGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-23b-3p(1), mmu-miR-92a-3p(1), mmu-miR-23a-3p(1), mmu-miR-25-3p(1), mmu-miR-425-5p(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ATTCAGAGTTCAGGGGCTCTGAAGGC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCUHRF2_529_ORF_1
0.7469
0.164967945
0.730170106
582
ORF sequence:
ATGGACCAATCCCTGGTATTCCTGTTGGATCAACTTGGAGATTCAGAGTTCAGGGGCTCTGAAGGCACATTAAATGACTGCCGAGTGATGTCTGTAGATGAAATCTTCAAGATTGAGAAGCCTGGAGCCCATCCCATTTCCTTTGCAGATGGAAAGTTTTTAAGGAAAAATGACCCTGAATGTGACCTGTGTGGTGGAGACCCAGATAAGACCTGTCACATGTGTTCGTGTCATAAGTGTGGAGAGAAGCGGGACCCCAACATGCAGCTGCTGTGTGACGAGTGCAATATGGCCTATCACATTTACTGCCTGAGCCCACCTCTGGACAAAGTCCCGGAAGAGGAATACTGGTATTGTCCTTCCTGTAAAACTGACTCCAGTGAGGTGGTAAAGGCTGGAGAGAGACTCAAGCTGAGTAAGAAGAAAGCGAAGATGCCCTCAGCCAGTACTGAGAGCCGGAGGGACTGGGGCAGGGGAATGGCTTGTGTTGGTCGTACAAAAGAATGTACTATTGTCCCTTCAAATCATTATGGACCAATCCCTGGTATTCCTGTTGGATCAACTTGGAGATTCAGAGTTCAG
Peptide sequence:
MDQSLVFLLDQLGDSEFRGSEGTLNDCRVMSVDEIFKIEKPGAHPISFADGKFLRKNDPECDLCGGDPDKTCHMCSCHKCGEKRDPNMQLLCDECNMAYHIYCLSPPLDKVPEEEYWYCPSCKTDSSEVVKAGERLKLSKKKAKMPSASTESRRDWGRGMACVGRTKECTIVPSNHYGPIPGIPVGSTWRFRVQ
IRESfinder result
IRESfinder score
0.476824766
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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