Variant report

Variant	rs1500336
Chromosome Location	chr9:8406003-8406004
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs10977081	1.00[CHB][hapmap];0.93[CHD][hapmap];0.92[JPT][hapmap];1.00[MEX][hapmap];0.95[ASN][1000 genomes]
rs10977086	0.92[JPT][hapmap]
rs12005474	1.00[CHB][hapmap];0.92[JPT][hapmap];0.96[ASN][1000 genomes]
rs12338308	1.00[CHB][hapmap];0.91[JPT][hapmap];0.98[ASN][1000 genomes]
rs12348387	0.86[JPT][hapmap];0.82[MEX][hapmap]
rs12349376	0.86[JPT][hapmap]
rs12352293	1.00[CHB][hapmap];1.00[CHD][hapmap];0.89[GIH][hapmap];0.92[JPT][hapmap];0.98[ASN][1000 genomes]
rs12375761	0.93[LWK][hapmap];0.82[YRI][hapmap]
rs1359115	0.86[JPT][hapmap]
rs1392523	1.00[CHB][hapmap];0.92[JPT][hapmap];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1500325	0.93[LWK][hapmap];0.82[YRI][hapmap]
rs1500335	1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2047594	0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2047595	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2133790	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2133791	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2296094	0.84[JPT][hapmap]
rs2296095	0.84[JPT][hapmap]
rs4146133	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4742491	0.93[LWK][hapmap];0.82[YRI][hapmap]
rs7028474	0.86[JPT][hapmap];0.82[MEX][hapmap]
rs7030220	0.86[JPT][hapmap]
rs72691046	0.89[AFR][1000 genomes];0.88[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs72691051	0.82[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs72691052	0.89[AFR][1000 genomes];0.88[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs72691074	0.96[ASN][1000 genomes]
rs7847051	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7852683	0.86[JPT][hapmap]
rs7876037	0.86[JPT][hapmap]
rs969005	0.87[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9792615	0.86[JPT][hapmap]
rs9792633	0.86[JPT][hapmap];1.00[MEX][hapmap]

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	nsv973439	chr9:8406003-8408876	Weak transcription Enhancers Flanking Active TSS	n/a	n/a	inside rSNPs	diseases

No data

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:8377800-8406400	Weak transcription	Fetal Brain Female	brain
2	chr9:8389600-8451000	Weak transcription	Primary hematopoietic stem cells	blood
3	chr9:8394000-8424400	Weak transcription	Fetal Lung	lung
4	chr9:8396000-8410400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr9:8402000-8408000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
6	chr9:8402200-8407400	Weak transcription	Brain Angular Gyrus	brain
7	chr9:8402400-8407600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
8	chr9:8402400-8407600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
9	chr9:8402400-8407800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
10	chr9:8402400-8407800	Weak transcription	Brain Substantia Nigra	brain
11	chr9:8402400-8408400	Weak transcription	HUES6 Cell Line	embryonic stem cell
12	chr9:8402400-8408600	Weak transcription	Brain Germinal Matrix	brain
13	chr9:8402400-8421000	Weak transcription	Brain Hippocampus Middle	brain
14	chr9:8402600-8407600	Weak transcription	Brain Inferior Temporal Lobe	brain
15	chr9:8402600-8408600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr9:8402600-8448800	Weak transcription	Cortex derived primary cultured neurospheres	brain
17	chr9:8402800-8438000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
18	chr9:8403200-8407600	Weak transcription	Brain Cingulate Gyrus	brain
19	chr9:8403400-8408000	Weak transcription	Brain Anterior Caudate	brain
20	chr9:8405800-8438000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived

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