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mmu_circZmym4_443
Basic information of circular RNA
PanCircBase ID:
mmu_circZmym4_443
mm39_Chr. Position ID:
chr4|126789072|126794541|-
Gene name:
Zmym4
Transcript:
ENSMUST00000135003.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
13,12,11,10
Exon/intron offsets:
0,3016,4652,5325
Genomic length:
5469
Exon/intron sizes in nt:
11,61,45,38,144
Flanking exon/introns:
chr4:126787259-126789072|chr4:126794541-126796335
Splice length:
443
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
TAGCAAGTATTTCCATGGTTCAAGCTGCTTCTGCAGGGCCTCCGTCCCTCAGAAAAGATTCAACTCCAGTCATTGCTAATGTGGTATCTTTAGCAAGTGCTCCTGCTGCCCAGCCCACAGCAAACACCAACAGCGTCTTACAAGGTGCAGTTCCAACAGTTACAGCGAAAATCATTGGGGATGCAAGTACTCAAACAGATGCCCTGAAACTTCCACCTTCCCAACCTCCAAGGCTTTTGAAGAACAAAGCTTTATTGTGCAAACCCATTACACAGACTAAAGCCACGTCATGTAAACCACATACTCAAAACAAAGAATGCCAGACAGACACTCCAAGTGAGCCCCAGGTTATGGTGGTACCAGTCCCTGTGCCAGTGTTTGTTCCCATACCTCTTCATCTTTACACCCAGTATACTCCTGTCCCCTTTGGGATTCCAGTTCCT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CAGTCCCTGTGCCAGTGTTT
60.47
CTTTTCTGAGGGACGGAGGC
60.39
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GTGGTACCAGTCCCTGTGC
60
CTTTTCTGAGGGACGGAGGC
60.39
147
PCR template sequence:
CCAGGTTATGGTGGTACCAGTCCCTGTGCCAGTGTTTGTTCCCATACCTCTTCATCTTTACACCCAGTATACTCCTGTCCCCTTTGGGATTCCAGTTCCTTAGCAAGTATTTCCATGGTTCAAGCTGCTTCTGCAGGGCCTCCGTCCCTCAGAAAAGATTCAACTCCAGTCATTGCTAATGTGGTATCTTTAGCAAGTGC
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-122-5p(1), mmu-miR-184-3p(1), mmu-miR-324-5p(1), mmu-miR-495-3p(1), mmu-miR-434-3p(1), mmu-miR-490-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GATTCCAGTTCCTTAGCAAGTATTTC
siRNA sets
AATACTTGCTAAGGAACTG, AAATACTTGCTAAGGAACT, ATACTTGCTAAGGAACTGG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCZMYM4_443_ORF_1
1.0833
-0.022444183
0.444339868
432
ORF sequence:
ATGGTTCAAGCTGCTTCTGCAGGGCCTCCGTCCCTCAGAAAAGATTCAACTCCAGTCATTGCTAATGTGGTATCTTTAGCAAGTGCTCCTGCTGCCCAGCCCACAGCAAACACCAACAGCGTCTTACAAGGTGCAGTTCCAACAGTTACAGCGAAAATCATTGGGGATGCAAGTACTCAAACAGATGCCCTGAAACTTCCACCTTCCCAACCTCCAAGGCTTTTGAAGAACAAAGCTTTATTGTGCAAACCCATTACACAGACTAAAGCCACGTCATGTAAACCACATACTCAAAACAAAGAATGCCAGACAGACACTCCAAGTGAGCCCCAGGTTATGGTGGTACCAGTCCCTGTGCCAGTGTTTGTTCCCATACCTCTTCATCTTTACACCCAGTATACTCCTGTCCCCTTTGGGATTCCAGTTCCTTAG
Peptide sequence:
MVQAASAGPPSLRKDSTPVIANVVSLASAPAAQPTANTNSVLQGAVPTVTAKIIGDASTQTDALKLPPSQPPRLLKNKALLCKPITQTKATSCKPHTQNKECQTDTPSEPQVMVVPVPVPVFVPIPLHLYTQYTPVPFGIPVP
IRESfinder result
IRESfinder score
0.712168671
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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