Variant report

Variant	rs3847293
Chromosome Location	chr9:8409888-8409889
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 38 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs10435748	0.89[ASN][1000 genomes]
rs10815851	0.95[CHB][hapmap];0.93[CHD][hapmap];1.00[GIH][hapmap];0.81[JPT][hapmap];1.00[LWK][hapmap];0.93[ASN][1000 genomes]
rs10815852	0.86[CEU][hapmap];1.00[CHB][hapmap];0.80[JPT][hapmap];0.93[ASN][1000 genomes]
rs10815872	1.00[CEU][hapmap];1.00[YRI][hapmap];0.81[EUR][1000 genomes]
rs10977018	0.81[GIH][hapmap]
rs10977020	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10977027	0.90[ASN][1000 genomes]
rs10977047	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10977048	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10977049	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10977050	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10977058	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10977088	1.00[CEU][hapmap];0.91[CHB][hapmap];0.90[EUR][1000 genomes]
rs1156793	0.81[GIH][hapmap]
rs12352188	1.00[CEU][hapmap];0.91[CHB][hapmap];0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12553563	1.00[CEU][hapmap];0.91[CHB][hapmap];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1392521	1.00[CEU][hapmap];0.91[CHB][hapmap];0.88[CHD][hapmap];0.95[GIH][hapmap];0.91[MEX][hapmap];1.00[TSI][hapmap];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1392522	1.00[CEU][hapmap];0.91[CHB][hapmap];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1392524	1.00[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];0.81[JPT][hapmap];0.90[ASN][1000 genomes]
rs1500324	0.83[CEU][hapmap];0.91[CHB][hapmap]
rs1500328	0.81[JPT][hapmap]
rs1535677	0.81[CHB][hapmap]
rs16927841	1.00[CEU][hapmap];0.89[CHB][hapmap];0.88[EUR][1000 genomes]
rs1875239	1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2221184	1.00[CEU][hapmap];0.91[CHB][hapmap];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2381796	0.81[CHB][hapmap];0.80[GIH][hapmap]
rs3739577	0.90[CEU][hapmap];0.85[AFR][1000 genomes];0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs3903826	1.00[YRI][hapmap];0.81[AMR][1000 genomes]
rs4742498	0.87[CHB][hapmap]
rs7030727	1.00[CEU][hapmap];0.91[CHB][hapmap];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs72614088	0.87[EUR][1000 genomes]
rs7853978	0.82[ASN][1000 genomes]
rs7854520	0.95[CHB][hapmap];0.81[JPT][hapmap];0.93[ASN][1000 genomes]
rs991250	0.91[CEU][hapmap];0.91[CHB][hapmap];0.88[CHD][hapmap];1.00[GIH][hapmap];0.82[MEX][hapmap];0.88[TSI][hapmap];0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv8414	chr9:7827373-8511613	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
2	nsv1031472	chr9:8250901-8712547	Enhancers Weak transcription Strong transcription ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
3	nsv1022796	chr9:8360729-9110046	Enhancers Weak transcription Bivalent Enhancer Strong transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
4	nsv613287	chr9:8408453-8422302	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs3847293	IL33	cis	parietal	SCAN

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:8389600-8451000	Weak transcription	Primary hematopoietic stem cells	blood
2	chr9:8394000-8424400	Weak transcription	Fetal Lung	lung
3	chr9:8396000-8410400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr9:8402400-8421000	Weak transcription	Brain Hippocampus Middle	brain
5	chr9:8402600-8448800	Weak transcription	Cortex derived primary cultured neurospheres	brain
6	chr9:8402800-8438000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
7	chr9:8405800-8438000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
8	chr9:8407600-8410800	Enhancers	iPS-18 Cell Line	embryonic stem cell
9	chr9:8407600-8410800	Enhancers	iPS-20b Cell Line	embryonic stem cell
10	chr9:8407800-8410600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
11	chr9:8407800-8414600	Weak transcription	Brain Inferior Temporal Lobe	brain
12	chr9:8408000-8410600	Enhancers	HUES64 Cell Line	embryonic stem cell
13	chr9:8408200-8429200	Weak transcription	Brain Cingulate Gyrus	brain
14	chr9:8408400-8410400	Enhancers	HUES6 Cell Line	embryonic stem cell
15	chr9:8408400-8410600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
16	chr9:8408600-8410600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr9:8408600-8410600	Enhancers	HUES48 Cell Line	embryonic stem cell
18	chr9:8408600-8410600	Enhancers	Brain Germinal Matrix	brain
19	chr9:8408800-8410600	Enhancers	ES-I3 Cell Line	embryonic stem cell
20	chr9:8408800-8410800	Enhancers	iPS-15b Cell Line	embryonic stem cell
21	chr9:8409000-8410400	Enhancers	Primary T cells from cord blood	blood
22	chr9:8409200-8410400	Enhancers	ES-WA7 Cell Line	embryonic stem cell
23	chr9:8409200-8410400	Flanking Active TSS	Dnd41	blood
24	chr9:8409400-8410200	Weak transcription	H9 Cell Line	embryonic stem cell
25	chr9:8409400-8410200	Weak transcription	Fetal Thymus	thymus
26	chr9:8409800-8410000	Enhancers	Brain Anterior Caudate	brain
27	chr9:8409800-8410400	Enhancers	Brain Substantia Nigra	brain

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