Variant report

Variant	rs7169542
Chromosome Location	chr15:31240887-31240888
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	chr15:31234145..31235781-chr15:31240039..31242317,2	MCF-7	breast:

Extended variants
information (count: 74 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:57)

rs_ID	r²[population]
rs11855516	1.00[AMR][1000 genomes]
rs11856775	1.00[AMR][1000 genomes]
rs11858651	1.00[AMR][1000 genomes]
rs11858680	1.00[AMR][1000 genomes]
rs28583796	1.00[AMR][1000 genomes]
rs28607120	1.00[AMR][1000 genomes]
rs28623378	1.00[AMR][1000 genomes]
rs28770770	1.00[AMR][1000 genomes]
rs28809782	1.00[AMR][1000 genomes]
rs55749458	1.00[AMR][1000 genomes]
rs55896057	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56179121	0.81[AFR][1000 genomes]
rs56408018	1.00[AMR][1000 genomes]
rs57499412	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58522856	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59803232	1.00[AMR][1000 genomes]
rs60002525	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60084176	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60718659	1.00[AMR][1000 genomes]
rs61009284	1.00[AMR][1000 genomes]
rs61080715	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61439612	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61528441	1.00[AMR][1000 genomes]
rs61599827	1.00[AMR][1000 genomes]
rs61701824	1.00[AMR][1000 genomes]
rs7163814	1.00[AMR][1000 genomes]
rs7165699	1.00[AMR][1000 genomes]
rs7169444	1.00[AMR][1000 genomes]
rs7170006	1.00[AMR][1000 genomes]
rs7182086	1.00[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73366503	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73366542	0.91[AFR][1000 genomes]
rs73366549	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73366561	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73366569	1.00[AMR][1000 genomes]
rs73366580	0.81[AFR][1000 genomes]
rs73366598	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73368419	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73368457	1.00[AMR][1000 genomes]
rs73377286	1.00[AMR][1000 genomes]
rs73377300	1.00[AMR][1000 genomes]
rs73379134	1.00[AMR][1000 genomes]
rs73379138	1.00[AMR][1000 genomes]
rs73379150	1.00[AMR][1000 genomes]
rs73379190	1.00[AMR][1000 genomes]
rs73381335	1.00[AMR][1000 genomes]
rs73381337	1.00[AMR][1000 genomes]
rs73381339	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73381351	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73381363	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74009242	1.00[AMR][1000 genomes]
rs74012716	1.00[AMR][1000 genomes]
rs8028459	1.00[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs8029314	0.91[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs8033175	1.00[AMR][1000 genomes]
rs8042198	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9783686	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:17 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv427955	chr15:30467980-31273174	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
2	nsv531138	chr15:30653877-31609679	Active TSS Weak transcription Enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	96 gene(s)	inside rSNPs	diseases
3	nsv916936	chr15:30921917-31337510	Active TSS Weak transcription Strong transcription Enhancers Bivalent/Poised TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
4	nsv525795	chr15:30936285-31324531	Weak transcription Enhancers ZNF genes & repeats Strong transcription Active TSS Genic enhancers Flanking Active TSS 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	35 gene(s)	inside rSNPs	diseases
5	nsv533434	chr15:30938215-31244225	Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
6	nsv903831	chr15:30986051-31723279	Flanking Active TSS Enhancers Active TSS Weak transcription Bivalent/Poised TSS Strong transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	84 gene(s)	inside rSNPs	diseases
7	nsv1046874	chr15:31008133-31294654	Enhancers Strong transcription Active TSS Weak transcription Transcr. at gene 5' and 3' Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
8	nsv1054147	chr15:31014507-31972706	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	87 gene(s)	inside rSNPs	diseases
9	nsv542306	chr15:31014507-31972706	Weak transcription Bivalent Enhancer Enhancers Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Active TSS Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	87 gene(s)	inside rSNPs	diseases
10	nsv832951	chr15:31131239-31304469	Strong transcription Active TSS Enhancers Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
11	nsv1039037	chr15:31140415-31277268	Strong transcription ZNF genes & repeats Genic enhancers Enhancers Weak transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
12	nsv542309	chr15:31140415-31277268	Weak transcription Strong transcription Active TSS Enhancers Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
13	nsv1036018	chr15:31140415-31544888	Enhancers Flanking Active TSS Active TSS Genic enhancers Strong transcription Weak transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	58 gene(s)	inside rSNPs	diseases
14	nsv521842	chr15:31140700-31272670	Weak transcription Transcr. at gene 5' and 3' Genic enhancers Strong transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
15	nsv903834	chr15:31179534-31293774	Weak transcription Genic enhancers Enhancers Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
16	esv33507	chr15:31183324-31471023	Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
17	nsv832952	chr15:31204426-31333998	Strong transcription Enhancers Genic enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:31200400-31242200	Strong transcription	Primary T cells from cord blood	blood
2	chr15:31200600-31254800	Strong transcription	Primary T helper cells fromperipheralblood	blood
3	chr15:31201200-31241400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
4	chr15:31215200-31241000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr15:31216000-31241600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
6	chr15:31216600-31245800	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
7	chr15:31221000-31246800	Strong transcription	Cortex derived primary cultured neurospheres	brain
8	chr15:31222600-31241000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
9	chr15:31225400-31246200	Strong transcription	Stomach Smooth Muscle	stomach
10	chr15:31225400-31255800	Strong transcription	Fetal Intestine Large	intestine
11	chr15:31225600-31241000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
12	chr15:31225600-31246000	Strong transcription	Placenta	Placenta
13	chr15:31225600-31246200	Strong transcription	Adipose Nuclei	Adipose
14	chr15:31225600-31253800	Strong transcription	Dnd41	blood
15	chr15:31225800-31241400	Strong transcription	Fetal Muscle Leg	muscle
16	chr15:31225800-31245400	Strong transcription	Skeletal Muscle Female	skeletal muscle
17	chr15:31225800-31246200	Strong transcription	GM12878-XiMat	blood
18	chr15:31225800-31256000	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
19	chr15:31226000-31241400	Strong transcription	HUES64 Cell Line	embryonic stem cell
20	chr15:31226000-31245400	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
21	chr15:31226000-31246000	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
22	chr15:31226000-31255800	Strong transcription	Fetal Stomach	stomach
23	chr15:31226000-31258800	Strong transcription	Duodenum Mucosa	Duodenum
24	chr15:31226200-31246400	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
25	chr15:31226200-31246800	Strong transcription	HUES6 Cell Line	embryonic stem cell
26	chr15:31226200-31269200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
27	chr15:31226400-31241400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
28	chr15:31226400-31260800	Strong transcription	Monocytes-CD14+_RO01746	blood
29	chr15:31226600-31245400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
30	chr15:31226600-31246000	Strong transcription	Ovary	ovary
31	chr15:31226600-31254400	Strong transcription	Fetal Thymus	thymus
32	chr15:31226600-31255200	Strong transcription	Duodenum Smooth Muscle	Duodenum
33	chr15:31226800-31244200	Strong transcription	iPS-20b Cell Line	embryonic stem cell
34	chr15:31226800-31245600	Strong transcription	Muscle Satellite Cultured Cells	--
35	chr15:31227000-31269600	Strong transcription	Primary monocytes fromperipheralblood	blood
36	chr15:31227200-31255800	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
37	chr15:31227200-31258800	Strong transcription	Primary hematopoietic stem cells short term culture	blood
38	chr15:31227400-31241800	Strong transcription	HUES48 Cell Line	embryonic stem cell
39	chr15:31228000-31246000	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
40	chr15:31228200-31246000	Strong transcription	Fetal Muscle Trunk	muscle
41	chr15:31228400-31241200	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
42	chr15:31228400-31241400	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
43	chr15:31228400-31245800	Strong transcription	Osteobl	bone
44	chr15:31228400-31246000	Strong transcription	Primary neutrophils fromperipheralblood	blood
45	chr15:31228400-31253600	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
46	chr15:31228400-31254400	Strong transcription	Primary T cells fromperipheralblood	blood
47	chr15:31228400-31254600	Strong transcription	Thymus	Thymus
48	chr15:31228600-31241800	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
49	chr15:31228600-31253200	Strong transcription	Primary T helper cells PMA-I stimulated	--
50	chr15:31228600-31258800	Strong transcription	Rectal Mucosa Donor 29	rectum

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