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mmu_circDcaf6_806
Basic information of circular RNA
PanCircBase ID:
mmu_circDcaf6_806
mm39_Chr. Position ID:
chr1|165227222|165256884|-
Gene name:
Dcaf6
Transcript:
ENSMUST00000027856.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
7,6,5,4,3,2
Exon/intron offsets:
0,11810,20457,23202,24648,29600
Genomic length:
29662
Exon/intron sizes in nt:
215,136,114,186,93,62
Flanking exon/introns:
chr1:165219801-165227222|chr1:165256884-165287699
Splice length:
806
Other database IDs:
circBase: mmu_circ_0008387, CIRCpedia: MMU_CIRCpedia_11529, circAtlas: mmu-Dcaf6_0017
circAtlas: hsa-DCAF6_0025
Human Ortholog IDs:
Mature spliced Sequence:
GAAGAAGAGAATTTATCCAAAGATTAAAACTTGAAGCAACTTTAAATGTGCATGATGGCTGTGTTAATACAATCTGTTGGAATGACACTGGAGAATATATTTTATCTGGCTCTGATGACACTAAACTTGTAATTAGTAATCCATACAGCAGAAAGGTTTTGACAACCATCCGTTCAGGGCATCGAGCAAATATATTTAGTGCAAAGTTTTTGCCGTGCACAGATGATAAGCAGATTGTGTCTTGCTCTGGAGATGGAGTCATATTTTATACTAACATTGAGCAAGATGCAGAAACTAACAGACAGTGCCAATTTACGTGCCATTATGGAACTACTTATGAGATTATGACTGTACCAAACGACCCTTACACCTTTCTGTCCTGTGGTGAAGATGGAACTGTTAGGTGGTTTGACACACGCATCAAAACCAGTTGCACAAAAGAAGACTGTAAAGATGATATTTTAATCAACTGTAGGCGTGCTGCCACATCTGTGGCTATTTGTCCCCCAGTACCATATTACCTTGCTGTGGGTTGTTCTGACAGCTCAGTACGGATTTATGATCGGCGAATGCTGGGCACAAGAGCTACAGGGAATTATGCAGGCCGAGGAACTACTGGAATGGTTGCTCGATTTATACCTTCTCATCTTAGTAACAAATCATGCAGAGTGACATCACTGTGTTACAGTGAAGATGGTCAAGAGATTCTTGTCAGTTATTCTTCAGACTACATCTATCTTTTTGACCCCAAAGATGATACTGCACGAGAACTTAAAACTCCTTCTGCAGAGGAGAGGCGAGAAGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCCCAAAGATGATACTGCACG
59.06
TCTCCAGTGTCATTCCAACAGA
59.03
155
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCCCAAAGATGATACTGCACG
59.06
TTCTCCAGTGTCATTCCAACAGA
59.61
156
PCR template sequence:
TCTTGTCAGTTATTCTTCAGACTACATCTATCTTTTTGACCCCAAAGATGATACTGCACGAGAACTTAAAACTCCTTCTGCAGAGGAGAGGCGAGAAGAGGAAGAAGAGAATTTATCCAAAGATTAAAACTTGAAGCAACTTTAAATGTGCATGATGGCTGTGTTAATACAATCTGTTGGAATGACACTGGAGAATATAT
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
GAGGCGAGAAGAGGAAGAAGAGAATT
siRNA sets
TCTTCTTCCTCTTCTCGCC,AATTCTCTTCTTCCTCTTC,TTCTCTTCTTCCTCTTCTC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCDCAF6_806_ORF_1
0.9938
0.072909069
0.597295168
489
ORF sequence:
ATGACTGTACCAAACGACCCTTACACCTTTCTGTCCTGTGGTGAAGATGGAACTGTTAGGTGGTTTGACACACGCATCAAAACCAGTTGCACAAAAGAAGACTGTAAAGATGATATTTTAATCAACTGTAGGCGTGCTGCCACATCTGTGGCTATTTGTCCCCCAGTACCATATTACCTTGCTGTGGGTTGTTCTGACAGCTCAGTACGGATTTATGATCGGCGAATGCTGGGCACAAGAGCTACAGGGAATTATGCAGGCCGAGGAACTACTGGAATGGTTGCTCGATTTATACCTTCTCATCTTAGTAACAAATCATGCAGAGTGACATCACTGTGTTACAGTGAAGATGGTCAAGAGATTCTTGTCAGTTATTCTTCAGACTACATCTATCTTTTTGACCCCAAAGATGATACTGCACGAGAACTTAAAACTCCTTCTGCAGAGGAGAGGCGAGAAGAGGAAGAAGAGAATTTATCCAAAGATTAA
Peptide sequence:
MTVPNDPYTFLSCGEDGTVRWFDTRIKTSCTKEDCKDDILINCRRAATSVAICPPVPYYLAVGCSDSSVRIYDRRMLGTRATGNYAGRGTTGMVARFIPSHLSNKSCRVTSLCYSEDGQEILVSYSSDYIYLFDPKDDTARELKTPSAEERREEEEENLSKD
IRESfinder result
IRESfinder score
0.665211563
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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