Variant report

Variant	rs3734258
Chromosome Location	chr6:34953738-34953739
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:34947461..34949129-chr6:34952748..34955327,2	MCF-7	breast:
2	chr6:34952785..34956692-chr6:34957031..34961884,7	K562	blood:
3	chr6:34937846..34940693-chr6:34953607..34956913,3	K562	blood:
4	chr6:34951005..34953968-chr6:34956984..34958726,3	MCF-7	breast:

Extended variants
information (count: 49 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs10807143	0.93[ASN][1000 genomes]
rs10947533	0.95[ASN][1000 genomes]
rs10947534	1.00[CEU][hapmap];0.93[JPT][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10947535	0.93[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.81[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs11755713	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs16895035	0.93[CHB][hapmap];0.94[JPT][hapmap]
rs16895354	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1737724	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs2030611	0.93[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.91[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs2395601	0.93[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.81[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs2395602	0.84[ASN][1000 genomes]
rs3734259	0.93[CHB][hapmap];1.00[JPT][hapmap]
rs3756859	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs3777750	0.80[CHB][hapmap];0.88[JPT][hapmap]
rs3800443	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs3800448	0.93[CHB][hapmap];1.00[JPT][hapmap]
rs3800450	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs3800452	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs3800453	0.93[CHB][hapmap];0.94[JPT][hapmap]
rs3822923	1.00[CHB][hapmap];0.94[JPT][hapmap]
rs56140217	0.83[ASN][1000 genomes]
rs56248791	0.94[ASN][1000 genomes]
rs6457799	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs6913108	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6918498	1.00[CHB][hapmap];0.93[JPT][hapmap];0.81[ASN][1000 genomes]
rs6941065	0.93[CHB][hapmap];1.00[JPT][hapmap]
rs7740148	0.93[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs7751820	0.93[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.81[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs7752468	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs847842	0.89[AFR][1000 genomes];0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs847844	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs847845	0.93[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs847861	0.93[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs847862	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.83[AFR][1000 genomes];0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs861878	0.81[ASN][1000 genomes]
rs9380465	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9380466	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9380467	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9380468	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9380470	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9380476	1.00[CHB][hapmap];0.94[JPT][hapmap];0.85[ASN][1000 genomes]
rs9380481	0.89[ASN][1000 genomes]
rs9784889	0.93[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.83[AFR][1000 genomes];0.93[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1022844	chr6:34317219-35060519	Weak transcription Genic enhancers Enhancers Active TSS Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
2	nsv538195	chr6:34317219-35060519	Enhancers Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Weak transcription Genic enhancers Active TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
3	nsv1026121	chr6:34786887-34961360	Weak transcription Enhancers Strong transcription Active TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region miRNA target site	19 gene(s)	inside rSNPs	diseases
4	nsv885797	chr6:34791027-34980601	Enhancers Strong transcription Weak transcription Flanking Active TSS Bivalent/Poised TSS Genic enhancers Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region miRNA target site	18 gene(s)	inside rSNPs	diseases
5	nsv1033135	chr6:34802652-34957093	Weak transcription Strong transcription Flanking Active TSS Enhancers Genic enhancers Bivalent Enhancer Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region miRNA target site	18 gene(s)	inside rSNPs	diseases
6	nsv5257	chr6:34925313-34970101	ZNF genes & repeats Weak transcription Strong transcription Enhancers Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:123 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:34920400-34958600	Weak transcription	Colonic Mucosa	Colon
2	chr6:34922000-34953800	Weak transcription	Hela-S3	cervix
3	chr6:34925600-34984800	Weak transcription	Pancreatic Islets	Pancreatic Islet
4	chr6:34926800-34992200	Weak transcription	Small Intestine	intestine
5	chr6:34929400-34963400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
6	chr6:34929800-34953800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
7	chr6:34931600-34954800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chr6:34932400-34981800	Weak transcription	Cortex derived primary cultured neurospheres	brain
9	chr6:34932800-34962400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
10	chr6:34935200-34954800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
11	chr6:34935200-34958800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
12	chr6:34938400-34954800	Weak transcription	Skeletal Muscle Male	skeletal muscle
13	chr6:34939400-34958600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
14	chr6:34939400-34978200	Weak transcription	Psoas Muscle	Psoas
15	chr6:34939400-35016000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
16	chr6:34944000-34954400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
17	chr6:34944600-34967200	Strong transcription	Monocytes-CD14+_RO01746	blood
18	chr6:34945200-34962200	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
19	chr6:34945200-34967200	Strong transcription	Primary monocytes fromperipheralblood	blood
20	chr6:34947800-34967000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
21	chr6:34948200-34963600	Strong transcription	Fetal Intestine Large	intestine
22	chr6:34948400-34954400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
23	chr6:34948600-34954400	Strong transcription	Ovary	ovary
24	chr6:34948600-34954600	Strong transcription	Fetal Stomach	stomach
25	chr6:34948600-34967200	Strong transcription	Primary neutrophils fromperipheralblood	blood
26	chr6:34948800-34954200	Strong transcription	Fetal Intestine Small	intestine
27	chr6:34948800-34954400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
28	chr6:34948800-34955800	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
29	chr6:34948800-34963600	Strong transcription	Primary T cells from cord blood	blood
30	chr6:34948800-34963600	Strong transcription	Rectal Mucosa Donor 29	rectum
31	chr6:34948800-34964200	Strong transcription	Primary T helper cells fromperipheralblood	blood
32	chr6:34949000-34954200	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
33	chr6:34949000-34954400	Strong transcription	HUES48 Cell Line	embryonic stem cell
34	chr6:34949000-34954400	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
35	chr6:34949200-34954400	Strong transcription	Primary T cells fromperipheralblood	blood
36	chr6:34949200-34954600	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
37	chr6:34949200-34954600	Strong transcription	Sigmoid Colon	Sigmoid Colon
38	chr6:34949200-34963200	Strong transcription	Fetal Thymus	thymus
39	chr6:34949200-34963400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
40	chr6:34949200-34963600	Strong transcription	Duodenum Mucosa	Duodenum
41	chr6:34949400-34954200	Strong transcription	Stomach Smooth Muscle	stomach
42	chr6:34949400-34954400	Strong transcription	H1 Cell Line	embryonic stem cell
43	chr6:34949400-34954800	Strong transcription	HUES64 Cell Line	embryonic stem cell
44	chr6:34949400-34955600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
45	chr6:34949400-34955800	Strong transcription	Primary B cells from peripheral blood	blood
46	chr6:34949400-34962800	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
47	chr6:34949400-34963600	Strong transcription	Rectal Mucosa Donor 31	rectum
48	chr6:34949600-34954400	Strong transcription	Fetal Brain Female	brain
49	chr6:34949600-34954400	Strong transcription	Fetal Muscle Leg	muscle
50	chr6:34949600-34954600	Strong transcription	Duodenum Smooth Muscle	Duodenum

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