Variant report

Variant	rs2619526
Chromosome Location	chr6:15652452-15652453
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:15646355..15648529-chr6:15650273..15652824,2	K562	blood:
2	chr6:15651916..15655538-chr6:15660985..15664284,6	K562	blood:
3	chr6:15651186..15653533-chr6:15660856..15664185,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000047579	Chromatin interaction

Extended variants
information (count: 103 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:101)

rs_ID	r²[population]
rs1018381	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1018382	0.94[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1040410	0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10949305	0.87[AFR][1000 genomes];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11752196	0.80[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11752598	0.84[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11753919	0.87[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs11755055	0.94[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11757499	0.80[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11759609	0.91[AFR][1000 genomes];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13437303	0.92[EUR][1000 genomes]
rs16876671	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1997679	1.00[ASN][1000 genomes]
rs2205852	0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2619516	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2619519	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2619522	0.81[ASN][1000 genomes]
rs2619524	0.81[ASN][1000 genomes]
rs2619525	0.81[ASN][1000 genomes]
rs2619529	0.80[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2619530	0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2619533	0.91[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2619534	0.90[AFR][1000 genomes];0.86[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs2619535	0.94[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2619540	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2619541	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2619544	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2619545	0.81[ASN][1000 genomes]
rs2619546	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2619547	0.81[ASN][1000 genomes]
rs2619548	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2619552	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2743548	0.80[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2743549	0.80[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2743550	0.94[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2743551	0.92[AFR][1000 genomes];0.86[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs2743552	0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2743553	0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2743853	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2743854	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2743856	0.81[ASN][1000 genomes]
rs2743858	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2743859	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2743860	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2743861	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2743864	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2743865	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2743866	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2743867	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2743869	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2743870	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2743871	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2743872	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6459408	1.00[ASN][1000 genomes]
rs6903159	1.00[ASN][1000 genomes]
rs734129	0.93[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7752070	0.93[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7770921	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs875463	0.81[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs9296976	0.88[EUR][1000 genomes]
rs9296977	0.86[EUR][1000 genomes]
rs9296978	0.82[AFR][1000 genomes];0.92[EUR][1000 genomes]
rs9296979	0.80[AFR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9296980	0.94[EUR][1000 genomes]
rs9296981	0.86[AFR][1000 genomes];0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9296984	0.93[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9296985	0.92[AFR][1000 genomes];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9296987	0.92[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9296988	0.96[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9464793	0.90[EUR][1000 genomes]
rs9464794	0.92[EUR][1000 genomes]
rs9464795	0.88[EUR][1000 genomes]
rs9464797	0.83[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9464801	0.94[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9464802	0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9464803	0.80[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9464805	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9464807	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9476835	0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9476836	0.90[EUR][1000 genomes]
rs9476837	0.92[EUR][1000 genomes]
rs9476838	0.87[AFR][1000 genomes];0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9476839	0.86[AFR][1000 genomes];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9476840	0.98[EUR][1000 genomes]
rs9476841	0.88[AFR][1000 genomes];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9476842	0.87[AFR][1000 genomes];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9476844	0.83[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9476845	0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9476846	0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9476849	0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9476854	0.87[AFR][1000 genomes];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9476858	0.94[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9476859	0.93[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9476860	0.84[AFR][1000 genomes];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9476863	0.93[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9476865	0.94[AFR][1000 genomes];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9476866	0.91[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9476867	0.96[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9476868	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9476869	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9476883	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv428136	chr6:15595640-15781241	Enhancers Genic enhancers Weak transcription Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	esv2755670	chr6:15624762-15736008	Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Enhancers Bivalent/Poised TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:78 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:15600000-15660400	Weak transcription	Hela-S3	cervix
2	chr6:15615000-15652600	Weak transcription	Colonic Mucosa	Colon
3	chr6:15615200-15662200	Weak transcription	Gastric	stomach
4	chr6:15616800-15662000	Weak transcription	Placenta	Placenta
5	chr6:15616800-15662200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr6:15621800-15662200	Weak transcription	Pancreas	Pancrea
7	chr6:15623800-15662000	Weak transcription	Stomach Smooth Muscle	stomach
8	chr6:15628600-15662000	Weak transcription	NHLF	lung
9	chr6:15629600-15654000	Weak transcription	Osteobl	bone
10	chr6:15629600-15657000	Weak transcription	K562	blood
11	chr6:15629600-15661800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
12	chr6:15632200-15662000	Weak transcription	Duodenum Mucosa	Duodenum
13	chr6:15634400-15657600	Weak transcription	HUES48 Cell Line	embryonic stem cell
14	chr6:15634600-15657600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
15	chr6:15637200-15662000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
16	chr6:15638200-15662000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
17	chr6:15639400-15662200	Weak transcription	Left Ventricle	heart
18	chr6:15642000-15662000	Weak transcription	Brain Angular Gyrus	brain
19	chr6:15642200-15662200	Weak transcription	Aorta	Aorta
20	chr6:15642400-15661400	Weak transcription	Spleen	Spleen
21	chr6:15642600-15662200	Weak transcription	Esophagus	oesophagus
22	chr6:15642800-15662000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
23	chr6:15642800-15662000	Weak transcription	Lung	lung
24	chr6:15642800-15662000	Weak transcription	Skeletal Muscle Male	skeletal muscle
25	chr6:15643000-15658600	Weak transcription	Fetal Thymus	thymus
26	chr6:15643000-15662000	Weak transcription	Fetal Stomach	stomach
27	chr6:15644400-15658600	Weak transcription	Psoas Muscle	Psoas
28	chr6:15644400-15661800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
29	chr6:15644400-15662000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
30	chr6:15644800-15658600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
31	chr6:15644800-15661800	Weak transcription	HepG2	liver
32	chr6:15644800-15662000	Weak transcription	Rectal Mucosa Donor 29	rectum
33	chr6:15644800-15662000	Weak transcription	Sigmoid Colon	Sigmoid Colon
34	chr6:15645600-15654800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
35	chr6:15645600-15661800	Weak transcription	Primary T cells fromperipheralblood	blood
36	chr6:15646000-15653400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
37	chr6:15646000-15662000	Weak transcription	NHDF-Ad	bronchial
38	chr6:15646200-15662000	Weak transcription	Fetal Muscle Trunk	muscle
39	chr6:15647200-15658800	Weak transcription	HUES64 Cell Line	embryonic stem cell
40	chr6:15647400-15653800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
41	chr6:15647600-15653800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
42	chr6:15647800-15662000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
43	chr6:15648200-15656200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
44	chr6:15648200-15662200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
45	chr6:15648400-15657200	Weak transcription	Primary T cells from cord blood	blood
46	chr6:15648600-15661000	Weak transcription	Fetal Intestine Large	intestine
47	chr6:15648600-15662000	Weak transcription	Fetal Lung	lung
48	chr6:15648800-15657600	Weak transcription	Primary T helper cells fromperipheralblood	blood
49	chr6:15648800-15662000	Weak transcription	Fetal Brain Female	brain
50	chr6:15649000-15658800	Weak transcription	Thymus	Thymus

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