Variant report

Variant	rs7747924
Chromosome Location	chr6:38118200-38118201
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	chr6:38112087..38114103-chr6:38117222..38118722,2	MCF-7	breast:
2	chr6:38116607..38119118-chr6:38160290..38163067,2	K562	blood:

Extended variants
information (count: 91 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:84)

rs_ID	r²[population]
rs11759344	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11961284	1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12663406	1.00[EUR][1000 genomes]
rs12663450	1.00[EUR][1000 genomes]
rs12665229	1.00[EUR][1000 genomes]
rs13437101	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs55749139	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs55890079	0.81[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs55933649	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56739079	1.00[EUR][1000 genomes]
rs56957219	1.00[EUR][1000 genomes]
rs57327758	0.94[AFR][1000 genomes]
rs57953063	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57965615	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58698408	1.00[EUR][1000 genomes]
rs58860274	1.00[EUR][1000 genomes]
rs59074919	1.00[EUR][1000 genomes]
rs59170481	1.00[EUR][1000 genomes]
rs59430914	1.00[EUR][1000 genomes]
rs60075988	1.00[EUR][1000 genomes]
rs60249007	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60774419	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60997161	0.82[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs6904932	0.91[YRI][hapmap];0.82[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs6912045	1.00[EUR][1000 genomes]
rs6917912	1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6918181	0.92[YRI][hapmap];0.83[AFR][1000 genomes]
rs6918445	0.92[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6918779	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6919188	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6924117	0.92[YRI][hapmap];1.00[EUR][1000 genomes]
rs6941852	1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73730849	1.00[EUR][1000 genomes]
rs73730859	0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73730865	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73730877	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73730881	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73730883	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73730892	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73730893	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73730896	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73730897	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73734310	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73734311	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73734319	1.00[EUR][1000 genomes]
rs73734320	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73734323	1.00[EUR][1000 genomes]
rs7745340	1.00[EUR][1000 genomes]
rs7748913	1.00[EUR][1000 genomes]
rs7765448	1.00[EUR][1000 genomes]
rs7767077	1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7770297	0.92[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7773080	1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9296235	1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9462375	1.00[EUR][1000 genomes]
rs9462381	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9462382	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9462383	1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9462384	1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9462385	1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9462386	1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9462387	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9462388	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9462390	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9462397	1.00[EUR][1000 genomes]
rs9470736	0.91[YRI][hapmap];1.00[EUR][1000 genomes]
rs9470744	1.00[YRI][hapmap];1.00[EUR][1000 genomes]
rs9470745	0.80[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs9470757	0.92[YRI][hapmap];0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9470766	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9470770	0.91[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9470771	1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9470774	1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9470781	1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9470783	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9470786	0.91[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9470787	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9470789	1.00[YRI][hapmap]
rs9470790	0.81[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs9470791	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9470792	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9470795	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9470797	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9470799	1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1028825	chr6:37495154-38278320	Enhancers Active TSS Weak transcription Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
2	nsv1020625	chr6:37833591-38155622	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
3	nsv1021991	chr6:37893949-38738720	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
4	esv2754649	chr6:37985025-38147910	Enhancers Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
5	nsv885817	chr6:38036420-39019503	Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Strong transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
6	nsv534620	chr6:38049585-38602064	Enhancers Strong transcription Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
7	nsv524213	chr6:38106844-38160627	Weak transcription Enhancers Genic enhancers Strong transcription ZNF genes & repeats Flanking Active TSS 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

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:38075200-38118200	Weak transcription	Colonic Mucosa	Colon
2	chr6:38081800-38121800	Weak transcription	Psoas Muscle	Psoas
3	chr6:38084000-38122200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
4	chr6:38084600-38124200	Weak transcription	Hela-S3	cervix
5	chr6:38087600-38118800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
6	chr6:38091200-38119800	Weak transcription	Rectal Mucosa Donor 31	rectum
7	chr6:38091400-38141800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
8	chr6:38095200-38122600	Weak transcription	A549	lung
9	chr6:38099800-38119600	Weak transcription	Aorta	Aorta
10	chr6:38103000-38127200	Weak transcription	Colon Smooth Muscle	Colon
11	chr6:38104000-38118400	Weak transcription	Rectal Mucosa Donor 29	rectum
12	chr6:38104600-38119600	Weak transcription	Gastric	stomach
13	chr6:38104600-38119600	Weak transcription	Sigmoid Colon	Sigmoid Colon
14	chr6:38109200-38123000	Weak transcription	Ovary	ovary
15	chr6:38109200-38129000	Weak transcription	Rectal Smooth Muscle	rectum
16	chr6:38110200-38122200	Weak transcription	HUVEC	blood vessel
17	chr6:38111000-38118600	Weak transcription	Primary neutrophils fromperipheralblood	blood
18	chr6:38111200-38119800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
19	chr6:38111200-38122400	Weak transcription	Primary hematopoietic stem cells	blood
20	chr6:38111800-38119600	Weak transcription	HSMMtube	muscle
21	chr6:38111800-38119800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
22	chr6:38111800-38120000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
23	chr6:38111800-38138200	Weak transcription	Fetal Brain Female	brain
24	chr6:38112400-38128400	Weak transcription	Brain Germinal Matrix	brain
25	chr6:38112400-38138200	Weak transcription	Fetal Brain Male	brain
26	chr6:38112800-38121200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
27	chr6:38113000-38121000	Weak transcription	HUES48 Cell Line	embryonic stem cell
28	chr6:38113000-38127800	Weak transcription	H9 Cell Line	embryonic stem cell
29	chr6:38113200-38119600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
30	chr6:38113200-38134400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
31	chr6:38113200-38138000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
32	chr6:38113400-38119800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
33	chr6:38113800-38120600	Weak transcription	Primary B cells from cord blood	blood
34	chr6:38114200-38118800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
35	chr6:38114200-38119600	Weak transcription	Placenta Amnion	Placenta Amnion
36	chr6:38114400-38118600	Weak transcription	Thymus	Thymus
37	chr6:38114400-38138200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
38	chr6:38114600-38119200	Weak transcription	Brain Cingulate Gyrus	brain
39	chr6:38114600-38119600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
40	chr6:38114600-38119600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
41	chr6:38114600-38119600	Weak transcription	Skeletal Muscle Female	skeletal muscle
42	chr6:38114600-38119800	Weak transcription	Osteobl	bone
43	chr6:38114600-38121400	Weak transcription	Brain Inferior Temporal Lobe	brain
44	chr6:38114600-38122600	Weak transcription	HMEC	breast
45	chr6:38114600-38123000	Weak transcription	Brain Substantia Nigra	brain
46	chr6:38114600-38123000	Weak transcription	NH-A	brain
47	chr6:38114600-38127200	Weak transcription	HSMM	muscle
48	chr6:38115200-38123200	Weak transcription	Muscle Satellite Cultured Cells	--
49	chr6:38115200-38123200	Weak transcription	Brain Angular Gyrus	brain
50	chr6:38115200-38123200	Weak transcription	Brain Hippocampus Middle	brain

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