Variant report

Variant	rs897166
Chromosome Location	chr9:2728358-2728359
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:2335749..2336338-chr9:2727775..2728597,3	MCF-7	breast:
2	chr9:2321723..2322570-chr9:2728160..2728820,2	MCF-7	breast:

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

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs10967738	0.87[AMR][1000 genomes]
rs10967739	0.87[AMR][1000 genomes]
rs10967743	0.87[AMR][1000 genomes]
rs10967744	0.87[AMR][1000 genomes]
rs10967745	0.87[AMR][1000 genomes]
rs10967746	0.87[AMR][1000 genomes]
rs10967748	0.87[AMR][1000 genomes]
rs10967749	0.87[AMR][1000 genomes]
rs10967752	0.87[AMR][1000 genomes]
rs10967755	0.87[AMR][1000 genomes]
rs12336382	0.87[AMR][1000 genomes]
rs12344297	0.87[AMR][1000 genomes]
rs12344301	0.87[AMR][1000 genomes]
rs12344452	0.87[AMR][1000 genomes]
rs12347927	0.87[AMR][1000 genomes]
rs12351591	0.82[YRI][hapmap];0.87[AMR][1000 genomes]
rs12352104	0.87[AMR][1000 genomes]
rs12352503	0.87[AMR][1000 genomes]
rs12352698	0.84[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs6475982	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6475983	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7031760	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7852190	0.87[AMR][1000 genomes]
rs7863245	0.87[AMR][1000 genomes]
rs7863628	0.87[AMR][1000 genomes]
rs7863634	0.87[AMR][1000 genomes]
rs7874863	0.87[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:18 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv530929	chr9:1998911-2925112	Active TSS Weak transcription Strong transcription Flanking Active TSS Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
2	nsv916750	chr9:2430846-2826706	Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Weak transcription Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
3	nsv1017581	chr9:2494815-3172020	Enhancers Weak transcription Genic enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
4	nsv539934	chr9:2494815-3172020	Strong transcription Weak transcription Enhancers Genic enhancers Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
5	nsv892079	chr9:2681430-2931341	Weak transcription Enhancers Strong transcription Bivalent Enhancer Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
6	nsv531565	chr9:2682523-2784028	Enhancers Weak transcription ZNF genes & repeats Strong transcription Genic enhancers Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
7	nsv516425	chr9:2690980-2790307	ZNF genes & repeats Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
8	nsv892081	chr9:2691186-2851026	Active TSS Genic enhancers Weak transcription Strong transcription Enhancers ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
9	nsv1030063	chr9:2691667-2729595	Weak transcription Enhancers ZNF genes & repeats Active TSS Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
10	nsv1032667	chr9:2691667-2788242	Enhancers ZNF genes & repeats Weak transcription Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
11	nsv1019973	chr9:2691812-2790419	Strong transcription Enhancers Genic enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
12	nsv539935	chr9:2691812-2790419	Enhancers Weak transcription ZNF genes & repeats Strong transcription Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
13	nsv892082	chr9:2699606-2833267	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
14	nsv1021572	chr9:2703159-2790123	Weak transcription Strong transcription ZNF genes & repeats Enhancers Genic enhancers Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3' Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
15	nsv1024262	chr9:2703159-3067931	Strong transcription Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
16	nsv1032100	chr9:2720207-2766110	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
17	nsv1033982	chr9:2724666-2780665	ZNF genes & repeats Strong transcription Weak transcription Flanking Active TSS Enhancers Genic enhancers Bivalent Enhancer Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
18	nsv539936	chr9:2724666-2780665	Strong transcription Enhancers ZNF genes & repeats Weak transcription Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

No data

Chromatin state (count:74 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:2716200-2729200	Weak transcription	Right Ventricle	heart
2	chr9:2718000-2772800	Weak transcription	Aorta	Aorta
3	chr9:2719200-2768400	Weak transcription	Cortex derived primary cultured neurospheres	brain
4	chr9:2719200-2768400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
5	chr9:2720600-2731800	Weak transcription	Primary T cells from cord blood	blood
6	chr9:2723000-2729200	Weak transcription	Lung	lung
7	chr9:2723200-2758000	Weak transcription	HSMM	muscle
8	chr9:2723200-2768400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
9	chr9:2724000-2735800	Weak transcription	HSMMtube	muscle
10	chr9:2724000-2746400	Weak transcription	NHEK	skin
11	chr9:2724800-2746200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
12	chr9:2725200-2730600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
13	chr9:2725800-2728400	Weak transcription	HUES64 Cell Line	embryonic stem cell
14	chr9:2726000-2728600	Enhancers	Fetal Stomach	stomach
15	chr9:2726200-2768400	Weak transcription	Sigmoid Colon	Sigmoid Colon
16	chr9:2726400-2728400	Enhancers	Fetal Muscle Leg	muscle
17	chr9:2726400-2728600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
18	chr9:2726600-2728400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
19	chr9:2726600-2729600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
20	chr9:2726800-2729600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
21	chr9:2727000-2744600	Weak transcription	Spleen	Spleen
22	chr9:2727200-2728400	Weak transcription	NHLF	lung
23	chr9:2727200-2733400	Weak transcription	Fetal Muscle Trunk	muscle
24	chr9:2727400-2728600	Enhancers	NHDF-Ad	bronchial
25	chr9:2727400-2732000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
26	chr9:2727600-2728600	Enhancers	Skeletal Muscle Male	skeletal muscle
27	chr9:2727600-2729600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
28	chr9:2727800-2728400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
29	chr9:2727800-2728400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
30	chr9:2727800-2728400	Enhancers	Pancreas	Pancrea
31	chr9:2727800-2728400	Enhancers	Skeletal Muscle Female	skeletal muscle
32	chr9:2727800-2728400	Enhancers	Osteobl	bone
33	chr9:2727800-2728600	Enhancers	iPS-15b Cell Line	embryonic stem cell
34	chr9:2727800-2728600	Enhancers	Fetal Lung	lung
35	chr9:2727800-2728600	Enhancers	Stomach Smooth Muscle	stomach
36	chr9:2727800-2728800	Enhancers	Primary B cells from peripheral blood	blood
37	chr9:2727800-2728800	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
38	chr9:2727800-2728800	Enhancers	HepG2	liver
39	chr9:2727800-2729000	Weak transcription	HMEC	breast
40	chr9:2727800-2729200	Enhancers	Muscle Satellite Cultured Cells	--
41	chr9:2727800-2729400	Enhancers	HUES6 Cell Line	embryonic stem cell
42	chr9:2727800-2729600	Enhancers	NH-A	brain
43	chr9:2727800-2729800	Enhancers	Fetal Heart	heart
44	chr9:2727800-2733000	Enhancers	Ovary	ovary
45	chr9:2728000-2728400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
46	chr9:2728000-2728400	Enhancers	HUES48 Cell Line	embryonic stem cell
47	chr9:2728000-2728400	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
48	chr9:2728000-2728400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
49	chr9:2728000-2728400	Flanking Active TSS	Fetal Kidney	kidney
50	chr9:2728000-2728400	Enhancers	Stomach Mucosa	stomach

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