Variant report

Variant	rs943738
Chromosome Location	chr9:16519377-16519378
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:16518671..16520605-chr9:16526925..16528585,2	MCF-7	breast:

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs10124761	0.80[CHB][hapmap];0.91[JPT][hapmap];0.89[ASN][1000 genomes]
rs10738435	0.82[CEU][hapmap];0.84[CHB][hapmap];0.87[JPT][hapmap];0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10756757	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10756762	0.92[CEU][hapmap]
rs10962519	0.88[CEU][hapmap]
rs10962520	0.82[CEU][hapmap]
rs1927630	0.88[ASN][1000 genomes]
rs2275256	0.89[CEU][hapmap]
rs4961492	0.82[CEU][hapmap]
rs7019299	0.89[CEU][hapmap]
rs7023752	0.95[CEU][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7033512	0.89[CEU][hapmap]
rs7034582	0.93[CEU][hapmap]
rs7044658	0.81[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs943737	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9886876	0.82[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv530933	chr9:16251206-16830845	Enhancers Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	nsv530934	chr9:16281246-16779432	Strong transcription Active TSS Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
3	nsv1032856	chr9:16465330-16773471	Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Strong transcription Genic enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
4	nsv540073	chr9:16465330-16773471	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
5	nsv892647	chr9:16476144-16521534	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

No data

Chromatin state (count:64 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:16514400-16519400	Weak transcription	Psoas Muscle	Psoas
2	chr9:16515600-16519600	Weak transcription	Fetal Brain Male	brain
3	chr9:16515600-16522000	Weak transcription	Rectal Mucosa Donor 31	rectum
4	chr9:16515600-16532600	Weak transcription	Aorta	Aorta
5	chr9:16516200-16519400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr9:16516200-16521200	Weak transcription	Fetal Muscle Leg	muscle
7	chr9:16516200-16521600	Weak transcription	HSMMtube	muscle
8	chr9:16516200-16521800	Weak transcription	Skeletal Muscle Male	skeletal muscle
9	chr9:16516200-16522000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
10	chr9:16516200-16522000	Weak transcription	Fetal Muscle Trunk	muscle
11	chr9:16516200-16522000	Weak transcription	Left Ventricle	heart
12	chr9:16516200-16522200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr9:16516200-16524800	Weak transcription	Lung	lung
14	chr9:16516400-16519800	Weak transcription	Right Atrium	heart
15	chr9:16516400-16521000	Weak transcription	Primary hematopoietic stem cells	blood
16	chr9:16517000-16522000	Weak transcription	Cortex derived primary cultured neurospheres	brain
17	chr9:16517200-16519400	Weak transcription	H9 Cell Line	embryonic stem cell
18	chr9:16517200-16520000	Weak transcription	NHDF-Ad	bronchial
19	chr9:16517200-16521400	Weak transcription	Brain Substantia Nigra	brain
20	chr9:16517200-16521400	Weak transcription	Stomach Smooth Muscle	stomach
21	chr9:16517200-16521400	Weak transcription	HSMM	muscle
22	chr9:16517200-16522000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr9:16517200-16522000	Weak transcription	Fetal Thymus	thymus
24	chr9:16517200-16522000	Weak transcription	Placenta Amnion	Placenta Amnion
25	chr9:16517200-16526800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
26	chr9:16517400-16519400	Weak transcription	Ovary	ovary
27	chr9:16517400-16520200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
28	chr9:16517600-16520000	Weak transcription	Fetal Stomach	stomach
29	chr9:16517600-16521200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
30	chr9:16517600-16521200	Weak transcription	NH-A	brain
31	chr9:16517600-16521600	Weak transcription	Muscle Satellite Cultured Cells	--
32	chr9:16517600-16521800	Weak transcription	Fetal Kidney	kidney
33	chr9:16517800-16519400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
34	chr9:16517800-16520800	Weak transcription	Colon Smooth Muscle	Colon
35	chr9:16517800-16521400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
36	chr9:16517800-16521400	Weak transcription	Duodenum Smooth Muscle	Duodenum
37	chr9:16518000-16519400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
38	chr9:16518000-16519400	Weak transcription	Fetal Lung	lung
39	chr9:16518000-16519400	Weak transcription	Rectal Smooth Muscle	rectum
40	chr9:16518000-16519400	Weak transcription	NHLF	lung
41	chr9:16518000-16519600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
42	chr9:16518000-16520400	Weak transcription	Osteobl	bone
43	chr9:16518000-16521600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
44	chr9:16518000-16524200	Weak transcription	A549	lung
45	chr9:16518400-16520600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
46	chr9:16518400-16521800	Weak transcription	HUVEC	blood vessel
47	chr9:16518600-16519400	Enhancers	ES-I3 Cell Line	embryonic stem cell
48	chr9:16518600-16520000	Enhancers	HUES6 Cell Line	embryonic stem cell
49	chr9:16518600-16520200	Enhancers	HUES48 Cell Line	embryonic stem cell
50	chr9:16518600-16520800	Enhancers	H1 Cell Line	embryonic stem cell

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