Variant report

Variant	rs11759574
Chromosome Location	chr6:37809169-37809170
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:37803626..37806524-chr6:37806785..37809778,2	K562	blood:
2	chr6:37786218..37789044-chr6:37808476..37810682,2	MCF-7	breast:
3	chr6:37785007..37788077-chr6:37806968..37810692,5	K562	blood:
4	chr6:37799938..37802432-chr6:37807821..37809995,2	K562	blood:
5	chr6:37797940..37799807-chr6:37808764..37811623,2	MCF-7	breast:
6	chr6:37785007..37788077-chr6:37806355..37810692,7	K562	blood:
7	chr6:37790878..37792753-chr6:37808430..37810032,2	K562	blood:

Variant related genes	Relation type
ENSG00000243313	Chromatin interaction
ENSG00000225945	Chromatin interaction
ENSG00000156639	Chromatin interaction

Extended variants
information (count: 82 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:78)

rs_ID	r²[population]
rs1041037	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10947710	0.90[CEU][hapmap]
rs11750950	0.91[CEU][hapmap]
rs11751706	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11752567	0.91[CEU][hapmap];1.00[CHB][hapmap];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11752623	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs11752650	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11752692	0.91[CEU][hapmap];1.00[CHB][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11752863	0.90[CEU][hapmap];0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11753054	0.91[CEU][hapmap]
rs11753118	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11753122	1.00[ASN][1000 genomes]
rs11753267	0.91[CEU][hapmap];1.00[CHB][hapmap];0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11753388	1.00[ASN][1000 genomes]
rs11754247	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11754248	0.90[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11754590	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11754980	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs11755559	0.91[CEU][hapmap];1.00[CHB][hapmap];0.86[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11755894	1.00[ASN][1000 genomes]
rs11756030	0.91[CEU][hapmap];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11757359	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11758035	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11758540	0.91[CEU][hapmap];1.00[CHB][hapmap];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11759205	1.00[ASN][1000 genomes]
rs11759475	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11759486	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11759721	0.91[CEU][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12661480	0.91[CEU][hapmap]
rs35142414	1.00[ASN][1000 genomes]
rs55811006	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55837436	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56073681	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56106114	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56159928	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56366053	1.00[ASN][1000 genomes]
rs56413211	1.00[ASN][1000 genomes]
rs57040650	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57180729	1.00[ASN][1000 genomes]
rs57269218	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57591988	0.86[EUR][1000 genomes]
rs59450336	1.00[ASN][1000 genomes]
rs59996041	0.83[EUR][1000 genomes]
rs73417491	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73417502	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73417963	1.00[ASN][1000 genomes]
rs73417971	1.00[ASN][1000 genomes]
rs73417972	1.00[ASN][1000 genomes]
rs73417996	1.00[ASN][1000 genomes]
rs73417997	1.00[ASN][1000 genomes]
rs73419414	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73419417	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73419418	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73419422	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73419436	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73419447	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73419451	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73419457	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73419461	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73419465	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73419475	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73419487	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73419907	1.00[ASN][1000 genomes]
rs73419916	1.00[ASN][1000 genomes]
rs73419919	1.00[ASN][1000 genomes]
rs73421427	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73421433	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73421436	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs73421439	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs73421444	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73421455	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73421464	1.00[ASN][1000 genomes]
rs73421467	1.00[ASN][1000 genomes]
rs73421473	1.00[ASN][1000 genomes]
rs73421477	1.00[ASN][1000 genomes]
rs73421479	1.00[ASN][1000 genomes]
rs73421483	1.00[ASN][1000 genomes]
rs752110	0.91[CEU][hapmap];0.83[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 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	nsv1024016	chr6:37567651-37981590	Weak transcription Enhancers Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
3	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
4	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

No data

Chromatin state (count:103 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:37791200-37820000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr6:37791400-37810200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr6:37791400-37813400	Weak transcription	Stomach Smooth Muscle	stomach
4	chr6:37791400-37816000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
5	chr6:37793800-37813600	Weak transcription	NH-A	brain
6	chr6:37794000-37819800	Weak transcription	Rectal Smooth Muscle	rectum
7	chr6:37795000-37813800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
8	chr6:37795000-37825600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
9	chr6:37795800-37813400	Weak transcription	HSMMtube	muscle
10	chr6:37796000-37812800	Weak transcription	Colonic Mucosa	Colon
11	chr6:37796000-37813200	Weak transcription	Rectal Mucosa Donor 29	rectum
12	chr6:37796000-37813800	Weak transcription	NHDF-Ad	bronchial
13	chr6:37796000-37815600	Weak transcription	Brain Inferior Temporal Lobe	brain
14	chr6:37796000-37828800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
15	chr6:37796000-37830600	Weak transcription	Hela-S3	cervix
16	chr6:37796200-37811400	Weak transcription	Muscle Satellite Cultured Cells	--
17	chr6:37796200-37813200	Weak transcription	Rectal Mucosa Donor 31	rectum
18	chr6:37798400-37812800	Weak transcription	HSMM	muscle
19	chr6:37798400-37815200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
20	chr6:37798400-37815800	Weak transcription	Fetal Heart	heart
21	chr6:37799400-37817400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
22	chr6:37799600-37809400	Weak transcription	Lung	lung
23	chr6:37799600-37811200	Weak transcription	Brain Substantia Nigra	brain
24	chr6:37799600-37811800	Weak transcription	Placenta	Placenta
25	chr6:37799600-37812800	Weak transcription	NHEK	skin
26	chr6:37799600-37813400	Weak transcription	Sigmoid Colon	Sigmoid Colon
27	chr6:37799600-37825800	Weak transcription	Esophagus	oesophagus
28	chr6:37799800-37825400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
29	chr6:37800200-37812800	Weak transcription	Gastric	stomach
30	chr6:37800200-37813400	Weak transcription	Skeletal Muscle Male	skeletal muscle
31	chr6:37800200-37830200	Weak transcription	Ovary	ovary
32	chr6:37800200-37836200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
33	chr6:37800400-37813200	Weak transcription	Colon Smooth Muscle	Colon
34	chr6:37800600-37809600	Weak transcription	Small Intestine	intestine
35	chr6:37800800-37809600	Weak transcription	Right Ventricle	heart
36	chr6:37801000-37809400	Weak transcription	Left Ventricle	heart
37	chr6:37801000-37811400	Weak transcription	Thymus	Thymus
38	chr6:37801000-37811600	Weak transcription	Fetal Thymus	thymus
39	chr6:37801000-37811800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
40	chr6:37801000-37813600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
41	chr6:37801000-37817600	Weak transcription	Spleen	Spleen
42	chr6:37801000-37818600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
43	chr6:37801200-37833400	Weak transcription	Fetal Muscle Leg	muscle
44	chr6:37802200-37809800	Weak transcription	Dnd41	blood
45	chr6:37802200-37812800	Weak transcription	A549	lung
46	chr6:37802400-37810000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
47	chr6:37802400-37811600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
48	chr6:37802400-37811600	Weak transcription	Fetal Muscle Trunk	muscle
49	chr6:37802400-37812800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
50	chr6:37802400-37813200	Weak transcription	Duodenum Smooth Muscle	Duodenum

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