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mmu_circDpy19l4_599
Basic information of circular RNA
PanCircBase ID:
mmu_circDpy19l4_599
mm39_Chr. Position ID:
chr4|11287474|11292688|-
Gene name:
Dpy19l4
Transcript:
ENSMUST00000139385.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
7,6,5,4,3
Exon/intron offsets:
0,2195,2716,2916,5079
Genomic length:
5214
Exon/intron sizes in nt:
159,74,99,132,135
Flanking exon/introns:
chr4:11281124-11287474|chr4:11292688-11295935
Splice length:
599
Other database IDs:
circAtlas: hsa-DPY19L4_0034
Human Ortholog IDs:
Mature spliced Sequence:
AGGTTTTGCTACCTGTTGCTGAGTACCTCGACGTACACTTTCATGATGGTGTGGGAGTACAGCCACTACGTCTTGTTTCTTCAGGCAGTATCCCTGCTGCTGCTAGATATCTTCTCAGTGGAACAAAGTGACAAGGTTTATGAAGTATATAAAGTCTACATATTTTCTCTCTTCCTTGGGTATTTACTACAGTTTGAGAATCCAGCTTTATTGGTGTCTCCTTTATTAAGTTTAGTAGGAGCGTTCATGCTTGTTAAGTGCCTTCAGCTGAATGGGAAAAAAGGAACTTTTGTGGCTAAAGTAATCAAAGTGTTTGAGTTTTACTTGTTATGTACCCTGCCGGTGACCTTGAATCTTATAGTGAAGATGTTTGTCCCACACAAAGAAAATGAGCATGTGCTGAAATTTCTTGAAGTCAAATTTGGACTAAATATGACTAAGAATTTCACACTGAACTGGCTCCTTTGTCAAGAGTCTCTCCAGGCGCCGTCCCAGGATTTTTTTTTCCGATTGACCCAATCTTCCCTGTTGCCATTCTATGTTTTAGTGTTAATTATTTGTCTTCTTTCTATGACACAAGTCTTTTTTAGAAGGATGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCCAATCTTCCCTGTTGCCA
60.25
GGCTGTACTCCCACACCATC
60.11
149
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACCCAATCTTCCCTGTTGCC
60.25
GGCTGTACTCCCACACCATC
60.11
150
PCR template sequence:
TTTTTTTCCGATTGACCCAATCTTCCCTGTTGCCATTCTATGTTTTAGTGTTAATTATTTGTCTTCTTTCTATGACACAAGTCTTTTTTAGAAGGATGAGAGGTTTTGCTACCTGTTGCTGAGTACCTCGACGTACACTTTCATGATGGTGTGGGAGTACAGCCACTACGTCTTGTTTCTTCAGGCAGTATCCCTGCTGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-16-5p(1), mmu-miR-320-3p(1), mmu-miR-503-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TTAGAAGGATGAGAGGTTTTGCTACC
siRNA sets
TAGCAAAACCTCTCATCCT, AAAACCTCTCATCCTTCTA, GTAGCAAAACCTCTCATCC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCDPY19L4_599_ORF_1
0.8577
-0.134487743
0.488076438
579
ORF sequence:
ATGATGGTGTGGGAGTACAGCCACTACGTCTTGTTTCTTCAGGCAGTATCCCTGCTGCTGCTAGATATCTTCTCAGTGGAACAAAGTGACAAGGTTTATGAAGTATATAAAGTCTACATATTTTCTCTCTTCCTTGGGTATTTACTACAGTTTGAGAATCCAGCTTTATTGGTGTCTCCTTTATTAAGTTTAGTAGGAGCGTTCATGCTTGTTAAGTGCCTTCAGCTGAATGGGAAAAAAGGAACTTTTGTGGCTAAAGTAATCAAAGTGTTTGAGTTTTACTTGTTATGTACCCTGCCGGTGACCTTGAATCTTATAGTGAAGATGTTTGTCCCACACAAAGAAAATGAGCATGTGCTGAAATTTCTTGAAGTCAAATTTGGACTAAATATGACTAAGAATTTCACACTGAACTGGCTCCTTTGTCAAGAGTCTCTCCAGGCGCCGTCCCAGGATTTTTTTTTCCGATTGACCCAATCTTCCCTGTTGCCATTCTATGTTTTAGTGTTAATTATTTGTCTTCTTTCTATGACACAAGTCTTTTTTAGAAGGATGAGAGGTTTTGCTACCTGTTGCTGA
Peptide sequence:
MMVWEYSHYVLFLQAVSLLLLDIFSVEQSDKVYEVYKVYIFSLFLGYLLQFENPALLVSPLLSLVGAFMLVKCLQLNGKKGTFVAKVIKVFEFYLLCTLPVTLNLIVKMFVPHKENEHVLKFLEVKFGLNMTKNFTLNWLLCQESLQAPSQDFFFRLTQSSLLPFYVLVLIICLLSMTQVFFRRMRGFATCC
IRESfinder result
IRESfinder score
0.874339064
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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