Variant report

Variant	rs9459409
Chromosome Location	chr6:165797462-165797463
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 45 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs11751648	1.00[CEU][hapmap];0.89[YRI][hapmap];0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs12181711	0.83[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs12182419	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs16897776	1.00[CEU][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1999548	0.85[EUR][1000 genomes]
rs35370121	0.80[EUR][1000 genomes]
rs60201680	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs73026280	0.85[EUR][1000 genomes]
rs73026292	0.84[EUR][1000 genomes]
rs73028225	0.82[EUR][1000 genomes]
rs73028227	0.85[EUR][1000 genomes]
rs73030134	0.80[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs73030135	0.87[AFR][1000 genomes];0.80[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs73030152	0.87[AFR][1000 genomes];0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs73030165	0.80[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs73030170	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs73788354	0.80[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs9457071	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs9457072	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs9457073	0.80[EUR][1000 genomes]
rs9457075	0.81[EUR][1000 genomes]
rs9457076	0.92[CEU][hapmap];0.82[EUR][1000 genomes]
rs9457078	1.00[CEU][hapmap];0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs9457081	1.00[CEU][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9459362	0.84[EUR][1000 genomes]
rs9459368	0.91[CEU][hapmap];0.84[EUR][1000 genomes]
rs9459370	0.91[CEU][hapmap];0.81[EUR][1000 genomes]
rs9459373	0.91[CEU][hapmap];0.84[EUR][1000 genomes]
rs9459374	0.83[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs9459377	0.84[EUR][1000 genomes]
rs9459378	0.81[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs9459380	0.80[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9459382	1.00[CEU][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.80[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9459383	0.87[AFR][1000 genomes];0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9459386	0.87[AFR][1000 genomes];0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9459403	1.00[CEU][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9459404	1.00[CEU][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9459407	1.00[CEU][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9459408	1.00[CEU][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv432982	chr6:165528589-165835589	Active TSS Strong transcription Enhancers Weak transcription Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
2	nsv605245	chr6:165542686-165845903	Strong transcription Enhancers Weak transcription Active TSS ZNF genes & repeats Genic enhancers Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
3	nsv1031648	chr6:165544569-165841029	Flanking Active TSS Enhancers Weak transcription Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
4	nsv432983	chr6:165554403-165851585	Active TSS Flanking Active TSS Weak transcription Strong transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
5	esv3417270	chr6:165682773-166023032	Weak transcription Enhancers Strong transcription ZNF genes & repeats Active TSS Genic enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
6	nsv886928	chr6:165722345-166197889	Strong transcription Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:32 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:165744800-165801200	Weak transcription	Hela-S3	cervix
2	chr6:165745600-165802800	Weak transcription	Fetal Heart	heart
3	chr6:165747400-165802600	Weak transcription	HSMMtube	muscle
4	chr6:165747600-165853000	Weak transcription	A549	lung
5	chr6:165763800-165797600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr6:165764400-165813400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr6:165772000-165835800	Weak transcription	Fetal Kidney	kidney
8	chr6:165776200-165798800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
9	chr6:165779800-165805000	Weak transcription	Cortex derived primary cultured neurospheres	brain
10	chr6:165787400-165813400	Weak transcription	Fetal Lung	lung
11	chr6:165788000-165798400	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
12	chr6:165788000-165856800	Weak transcription	Fetal Muscle Trunk	muscle
13	chr6:165788400-165803600	Weak transcription	Fetal Stomach	stomach
14	chr6:165789400-165798200	Weak transcription	Fetal Brain Male	brain
15	chr6:165790000-165810600	Weak transcription	Duodenum Smooth Muscle	Duodenum
16	chr6:165790200-165831400	Weak transcription	Fetal Muscle Leg	muscle
17	chr6:165790400-165804000	Weak transcription	Aorta	Aorta
18	chr6:165790400-165811400	Weak transcription	Ovary	ovary
19	chr6:165790800-165798000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
20	chr6:165791400-165834000	Weak transcription	Brain Anterior Caudate	brain
21	chr6:165791600-165798800	Weak transcription	Fetal Brain Female	brain
22	chr6:165793000-165798200	Weak transcription	Left Ventricle	heart
23	chr6:165794000-165807400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
24	chr6:165795200-165799600	Strong transcription	HSMM	muscle
25	chr6:165795200-165801000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
26	chr6:165795800-165804000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
27	chr6:165796000-165813400	Weak transcription	Brain Germinal Matrix	brain
28	chr6:165796400-165823000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
29	chr6:165796800-165797600	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
30	chr6:165796800-165806400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
31	chr6:165797200-165807600	Weak transcription	Brain Hippocampus Middle	brain
32	chr6:165797400-165800600	Weak transcription	Right Ventricle	heart

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