Variant report

Variant	rs6904932
Chromosome Location	chr6:37988918-37988919
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:37988302..37990407-chr6:37992998..37995067,2	K562	blood:

Extended variants
information (count: 115 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:107)

rs_ID	r²[population]
rs10046397	1.00[YRI][hapmap];1.00[EUR][1000 genomes]
rs10080245	1.00[EUR][1000 genomes]
rs11759344	1.00[EUR][1000 genomes]
rs11961284	0.91[YRI][hapmap];0.85[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs12178911	1.00[YRI][hapmap];1.00[EUR][1000 genomes]
rs12663406	1.00[EUR][1000 genomes]
rs12663450	1.00[EUR][1000 genomes]
rs12665229	1.00[EUR][1000 genomes]
rs13437101	0.91[YRI][hapmap];0.82[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs55749139	0.85[AFR][1000 genomes]
rs55890079	0.81[AFR][1000 genomes]
rs55933649	0.89[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs56739079	1.00[EUR][1000 genomes]
rs56957219	1.00[EUR][1000 genomes]
rs56958593	1.00[EUR][1000 genomes]
rs57327758	0.84[AFR][1000 genomes]
rs57953063	1.00[EUR][1000 genomes]
rs57965615	0.85[AFR][1000 genomes]
rs58305294	1.00[EUR][1000 genomes]
rs58698408	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58860274	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];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	0.82[AFR][1000 genomes]
rs60774419	0.85[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs60997161	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6906120	0.81[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs6912045	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6917912	0.91[YRI][hapmap];0.85[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs6918181	1.00[YRI][hapmap];0.83[AFR][1000 genomes]
rs6918445	1.00[YRI][hapmap];0.89[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs6918779	0.85[AFR][1000 genomes]
rs6919188	0.85[AFR][1000 genomes]
rs6924117	1.00[YRI][hapmap];0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6926669	1.00[YRI][hapmap];1.00[EUR][1000 genomes]
rs6941852	0.91[YRI][hapmap];0.85[AFR][1000 genomes]
rs73730818	1.00[EUR][1000 genomes]
rs73730823	1.00[EUR][1000 genomes]
rs73730827	0.81[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73730832	0.81[AFR][1000 genomes];0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73730849	0.96[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73730859	0.83[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73730865	0.87[AFR][1000 genomes]
rs73730877	0.85[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73730881	0.89[AFR][1000 genomes]
rs73730883	0.85[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73730892	0.85[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73730893	0.85[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73730896	0.85[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73730897	0.85[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73734310	0.82[AFR][1000 genomes]
rs73734319	1.00[EUR][1000 genomes]
rs73734320	1.00[EUR][1000 genomes]
rs73734323	1.00[EUR][1000 genomes]
rs7745340	1.00[EUR][1000 genomes]
rs7747924	0.91[YRI][hapmap];0.82[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs7748913	1.00[EUR][1000 genomes]
rs7756841	1.00[YRI][hapmap];0.81[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs7765448	1.00[EUR][1000 genomes]
rs7767077	0.91[YRI][hapmap];0.85[AFR][1000 genomes]
rs7769848	1.00[YRI][hapmap];1.00[EUR][1000 genomes]
rs7770297	0.89[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs7773080	0.91[YRI][hapmap];0.85[AFR][1000 genomes]
rs9296235	1.00[YRI][hapmap];0.85[AFR][1000 genomes]
rs9462367	1.00[EUR][1000 genomes]
rs9462370	1.00[EUR][1000 genomes]
rs9462371	1.00[EUR][1000 genomes]
rs9462375	1.00[EUR][1000 genomes]
rs9462381	0.84[AFR][1000 genomes]
rs9462383	0.91[YRI][hapmap];0.85[AFR][1000 genomes]
rs9462384	0.89[YRI][hapmap];0.85[AFR][1000 genomes]
rs9462385	0.91[YRI][hapmap];0.85[AFR][1000 genomes]
rs9462386	0.91[YRI][hapmap];0.85[AFR][1000 genomes]
rs9462387	0.85[AFR][1000 genomes]
rs9462388	0.85[AFR][1000 genomes]
rs9462390	0.91[YRI][hapmap];0.82[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs9462397	1.00[EUR][1000 genomes]
rs9470711	1.00[EUR][1000 genomes]
rs9470715	1.00[YRI][hapmap];1.00[EUR][1000 genomes]
rs9470716	1.00[YRI][hapmap];1.00[EUR][1000 genomes]
rs9470717	1.00[YRI][hapmap]
rs9470719	1.00[EUR][1000 genomes]
rs9470722	1.00[EUR][1000 genomes]
rs9470729	1.00[YRI][hapmap];0.81[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs9470731	1.00[YRI][hapmap];0.81[AFR][1000 genomes];0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9470733	1.00[EUR][1000 genomes]
rs9470736	1.00[YRI][hapmap];0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9470744	1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9470745	0.98[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9470757	1.00[YRI][hapmap];0.89[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs9470766	0.81[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs9470770	1.00[YRI][hapmap];0.85[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs9470771	0.91[YRI][hapmap];0.82[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs9470774	0.91[YRI][hapmap];0.85[AFR][1000 genomes]
rs9470781	1.00[YRI][hapmap];0.85[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs9470783	0.84[AFR][1000 genomes]
rs9470786	1.00[YRI][hapmap];0.89[AFR][1000 genomes]
rs9470787	0.85[AFR][1000 genomes]
rs9470789	1.00[YRI][hapmap]
rs9470790	0.81[AFR][1000 genomes]
rs9470791	0.85[AFR][1000 genomes]
rs9470792	0.81[AFR][1000 genomes]
rs9470795	0.85[AFR][1000 genomes]
rs9470797	0.85[AFR][1000 genomes]
rs9470799	0.85[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:8 , 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	nsv1017051	chr6:37789341-38084719	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	nsv538203	chr6:37789341-38084719	Enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	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
5	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
6	esv34450	chr6:37963308-38007241	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
7	esv2763549	chr6:37985025-38014006	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
8	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

No data

Chromatin state (count:43 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:37963000-37995600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr6:37979400-37989000	Weak transcription	Primary T cells from cord blood	blood
3	chr6:37981400-37989000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
4	chr6:37981400-37989000	Weak transcription	Primary T helper cells PMA-I stimulated	--
5	chr6:37981400-37990400	Weak transcription	Fetal Brain Female	brain
6	chr6:37982600-37989400	Weak transcription	Psoas Muscle	Psoas
7	chr6:37983000-37994600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
8	chr6:37983400-37994600	Weak transcription	Skeletal Muscle Female	skeletal muscle
9	chr6:37984200-37989400	Enhancers	Liver	Liver
10	chr6:37985000-37989000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
11	chr6:37985000-37995600	Weak transcription	Primary hematopoietic stem cells	blood
12	chr6:37985000-38002400	Weak transcription	Primary B cells from cord blood	blood
13	chr6:37985000-38030200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
14	chr6:37985200-37989000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
15	chr6:37985200-37991400	Weak transcription	GM12878-XiMat	blood
16	chr6:37985200-37995000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
17	chr6:37985200-37995400	Weak transcription	A549	lung
18	chr6:37985200-37995600	Weak transcription	Brain Angular Gyrus	brain
19	chr6:37985200-38001400	Weak transcription	Small Intestine	intestine
20	chr6:37985400-37989000	Weak transcription	Monocytes-CD14+_RO01746	blood
21	chr6:37985400-37992200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
22	chr6:37987000-37993600	Weak transcription	Sigmoid Colon	Sigmoid Colon
23	chr6:37987400-37990800	Enhancers	Colon Smooth Muscle	Colon
24	chr6:37987600-37989600	Enhancers	Cortex derived primary cultured neurospheres	brain
25	chr6:37987600-37989800	Enhancers	Left Ventricle	heart
26	chr6:37987600-37989800	Enhancers	Rectal Smooth Muscle	rectum
27	chr6:37987800-37990000	Enhancers	Stomach Smooth Muscle	stomach
28	chr6:37987800-37990400	Enhancers	Duodenum Smooth Muscle	Duodenum
29	chr6:37987800-37990800	Enhancers	Fetal Stomach	stomach
30	chr6:37988000-38001400	Weak transcription	Stomach Mucosa	stomach
31	chr6:37988200-37989200	Enhancers	Fetal Lung	lung
32	chr6:37988400-37989000	Enhancers	iPS-15b Cell Line	embryonic stem cell
33	chr6:37988400-37989400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
34	chr6:37988400-37989800	Enhancers	Brain Anterior Caudate	brain
35	chr6:37988400-37990400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
36	chr6:37988400-37990400	Enhancers	Brain Hippocampus Middle	brain
37	chr6:37988400-37995600	Weak transcription	Skeletal Muscle Male	skeletal muscle
38	chr6:37988600-37989400	Weak transcription	Right Ventricle	heart
39	chr6:37988600-37989600	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
40	chr6:37988800-37989000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
41	chr6:37988800-37989200	Flanking Active TSS	Pancreatic Islets	Pancreatic Islet
42	chr6:37988800-37989600	Enhancers	Primary neutrophils fromperipheralblood	blood
43	chr6:37988800-37989600	Weak transcription	Brain Substantia Nigra	brain

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