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mmu_circDcaf6_529
Basic information of circular RNA
PanCircBase ID:
mmu_circDcaf6_529
mm39_Chr. Position ID:
chr1|165239032|165251963|-
Gene name:
Dcaf6
Transcript:
ENSMUST00000027856.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
6,5,4,3
Exon/intron offsets:
0,8647,11392,12838
Genomic length:
12931
Exon/intron sizes in nt:
136,114,186,93
Flanking exon/introns:
chr1:165227437-165239032|chr1:165251963-165256822
Splice length:
529
Other database IDs:
CIRCpedia: MMU_CIRCpedia_11530, circAtlas: mmu-Dcaf6_0042
Human Ortholog IDs:
Mature spliced Sequence:
GTTAATACAATCTGTTGGAATGACACTGGAGAATATATTTTATCTGGCTCTGATGACACTAAACTTGTAATTAGTAATCCATACAGCAGAAAGGTTTTGACAACCATCCGTTCAGGGCATCGAGCAAATATATTTAGTGCAAAGTTTTTGCCGTGCACAGATGATAAGCAGATTGTGTCTTGCTCTGGAGATGGAGTCATATTTTATACTAACATTGAGCAAGATGCAGAAACTAACAGACAGTGCCAATTTACGTGCCATTATGGAACTACTTATGAGATTATGACTGTACCAAACGACCCTTACACCTTTCTGTCCTGTGGTGAAGATGGAACTGTTAGGTGGTTTGACACACGCATCAAAACCAGTTGCACAAAAGAAGACTGTAAAGATGATATTTTAATCAACTGTAGGCGTGCTGCCACATCTGTGGCTATTTGTCCCCCAGTACCATATTACCTTGCTGTGGGTTGTTCTGACAGCTCAGTACGGATTTATGATCGGCGAATGCTGGGCACAAGAGCTACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GTGGCTATTTGTCCCCCAGT
59.67
AGTTTAGTGTCATCAGAGCCAGA
59.17
165
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACCTTGCTGTGGGTTGTTCT
59.74
ACAAGTTTAGTGTCATCAGAGCCA
60.2
140
PCR template sequence:
GTGGCTATTTGTCCCCCAGTACCATATTACCTTGCTGTGGGTTGTTCTGACAGCTCAGTACGGATTTATGATCGGCGAATGCTGGGCACAAGAGCTACAGGTTAATACAATCTGTTGGAATGACACTGGAGAATATATTTTATCTGGCTCTGATGACACTAAACTTGTAATTAGTAATCCATACAGCAGAAAGGTTTTGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
7
Interacting miRNAs (#binding sites)
mmu-miR-199a-5p(1), mmu-miR-184-3p(1), mmu-miR-196a-5p(1), mmu-miR-183-5p(1), mmu-miR-1904(1), mmu-miR-3105-3p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ACAAGAGCTACAGGTTAATACAATCT
siRNA sets
ATTGTATTAACCTGTAGCT,TTGTATTAACCTGTAGCTC,GATTGTATTAACCTGTAGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCDCAF6_529_ORF_1
0.9501
0.021679234
0.65384946
561
ORF sequence:
ATGATCGGCGAATGCTGGGCACAAGAGCTACAGGTTAATACAATCTGTTGGAATGACACTGGAGAATATATTTTATCTGGCTCTGATGACACTAAACTTGTAATTAGTAATCCATACAGCAGAAAGGTTTTGACAACCATCCGTTCAGGGCATCGAGCAAATATATTTAGTGCAAAGTTTTTGCCGTGCACAGATGATAAGCAGATTGTGTCTTGCTCTGGAGATGGAGTCATATTTTATACTAACATTGAGCAAGATGCAGAAACTAACAGACAGTGCCAATTTACGTGCCATTATGGAACTACTTATGAGATTATGACTGTACCAAACGACCCTTACACCTTTCTGTCCTGTGGTGAAGATGGAACTGTTAGGTGGTTTGACACACGCATCAAAACCAGTTGCACAAAAGAAGACTGTAAAGATGATATTTTAATCAACTGTAGGCGTGCTGCCACATCTGTGGCTATTTGTCCCCCAGTACCATATTACCTTGCTGTGGGTTGTTCTGACAGCTCAGTACGGATTTATGATCGGCGAATGCTGGGCACAAGAGCTACA
Peptide sequence:
MIGECWAQELQVNTICWNDTGEYILSGSDDTKLVISNPYSRKVLTTIRSGHRANIFSAKFLPCTDDKQIVSCSGDGVIFYTNIEQDAETNRQCQFTCHYGTTYEIMTVPNDPYTFLSCGEDGTVRWFDTRIKTSCTKEDCKDDILINCRRAATSVAICPPVPYYLAVGCSDSSVRIYDRRMLGTRAT
IRESfinder result
IRESfinder score
0.615375177
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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