Variant report

Variant	rs9459404
Chromosome Location	chr6:165789910-165789911
allele	C/T
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];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12181711	0.89[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs12182419	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs16897776	1.00[CEU][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1999548	0.88[EUR][1000 genomes]
rs35370121	0.85[EUR][1000 genomes]
rs60201680	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs73026280	0.88[EUR][1000 genomes]
rs73026292	0.86[EUR][1000 genomes]
rs73028225	0.91[EUR][1000 genomes]
rs73028227	0.88[EUR][1000 genomes]
rs73030134	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs73030135	0.93[AFR][1000 genomes];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs73030152	0.93[AFR][1000 genomes];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs73030165	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs73030170	0.80[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs73788354	0.86[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs9457071	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs9457072	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs9457073	0.85[EUR][1000 genomes]
rs9457075	0.89[EUR][1000 genomes]
rs9457076	0.91[CEU][hapmap];0.85[EUR][1000 genomes]
rs9457078	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9457081	1.00[CEU][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9459362	0.86[EUR][1000 genomes]
rs9459368	0.89[CEU][hapmap];0.86[EUR][1000 genomes]
rs9459370	0.89[CEU][hapmap];0.87[EUR][1000 genomes]
rs9459373	0.89[CEU][hapmap];0.86[EUR][1000 genomes]
rs9459374	0.89[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs9459377	0.86[EUR][1000 genomes]
rs9459378	0.87[AFR][1000 genomes];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9459380	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9459382	1.00[CEU][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9459383	0.93[AFR][1000 genomes];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9459386	0.93[AFR][1000 genomes];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9459403	1.00[CEU][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9459407	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9459408	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9459409	1.00[CEU][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.84[AMR][1000 genomes];0.91[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:25 , 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	chr6:165763800-165797000	Weak transcription	Right Ventricle	heart
6	chr6:165763800-165797600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr6:165764400-165813400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr6:165769800-165791800	Weak transcription	Left Ventricle	heart
9	chr6:165772000-165835800	Weak transcription	Fetal Kidney	kidney
10	chr6:165776200-165798800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
11	chr6:165777400-165791200	Weak transcription	Fetal Brain Female	brain
12	chr6:165779800-165805000	Weak transcription	Cortex derived primary cultured neurospheres	brain
13	chr6:165787400-165813400	Weak transcription	Fetal Lung	lung
14	chr6:165788000-165790000	Strong transcription	HSMM	muscle
15	chr6:165788000-165793200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr6:165788000-165793800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
17	chr6:165788000-165798400	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
18	chr6:165788000-165856800	Weak transcription	Fetal Muscle Trunk	muscle
19	chr6:165788400-165790600	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
20	chr6:165788400-165803600	Weak transcription	Fetal Stomach	stomach
21	chr6:165789000-165790400	Strong transcription	Ovary	ovary
22	chr6:165789400-165798200	Weak transcription	Fetal Brain Male	brain
23	chr6:165789600-165790600	Strong transcription	Brain Germinal Matrix	brain
24	chr6:165789600-165790800	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
25	chr6:165789800-165790400	Strong transcription	Aorta	Aorta

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