Variant report

Variant	rs3804332
Chromosome Location	chr6:106703618-106703619
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:106702583..106704653-chr6:106707003..106708997,2	K562	blood:
2	chr6:106702743..106704638-chr6:106718970..106721930,2	MCF-7	breast:
3	chr6:106702821..106705726-chr6:106719179..106721244,2	K562	blood:

Extended variants
information (count: 48 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs10484576	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10485352	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.86[JPT][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];0.90[TSI][hapmap];1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10499049	0.90[CEU][hapmap];1.00[AFR][1000 genomes];0.90[EUR][1000 genomes]
rs12524358	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12526431	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];1.00[MKK][hapmap];0.90[TSI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12526668	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.89[JPT][hapmap];0.89[MEX][hapmap];1.00[MKK][hapmap];0.90[TSI][hapmap];1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12529488	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1415945	1.00[AFR][1000 genomes]
rs17066826	1.00[AFR][1000 genomes]
rs17066847	1.00[AFR][1000 genomes]
rs17558727	1.00[ASW][hapmap]
rs17587319	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17625939	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2299860	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.81[MEX][hapmap];0.90[TSI][hapmap];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28656919	1.00[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs2883662	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3761796	1.00[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs3804338	0.93[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.84[MEX][hapmap];0.91[ASN][1000 genomes]
rs3810872	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4945745	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4945746	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4945748	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4946735	1.00[AFR][1000 genomes]
rs4946736	1.00[AFR][1000 genomes]
rs4946737	1.00[AFR][1000 genomes]
rs4946739	1.00[AFR][1000 genomes]
rs4946741	0.93[CHB][hapmap];0.89[JPT][hapmap];1.00[AFR][1000 genomes]
rs55682462	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs56204731	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:19 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv932155	chr6:106281728-107030467	Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Bivalent/Poised TSS Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
2	nsv1025900	chr6:106529777-106898421	Strong transcription Enhancers Weak transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
3	nsv1018270	chr6:106531658-106908606	Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS 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 target site	34 gene(s)	inside rSNPs	diseases
4	nsv538399	chr6:106531658-106908606	Flanking Active TSS Active TSS Enhancers Strong transcription Genic enhancers Weak transcription Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
5	nsv1035110	chr6:106557281-106802212	Enhancers Strong transcription ZNF genes & repeats Weak transcription Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
6	nsv538400	chr6:106557281-106802212	Enhancers Weak transcription ZNF genes & repeats Strong transcription Active TSS Genic enhancers Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
7	nsv1022855	chr6:106570926-106802072	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Strong transcription Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
8	nsv538401	chr6:106570926-106802072	Flanking Active TSS Enhancers Strong transcription Weak transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
9	nsv1019265	chr6:106587627-106727591	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
10	nsv538402	chr6:106587627-106727591	Active TSS Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
11	nsv532047	chr6:106591482-107143252	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
12	nsv1025963	chr6:106593639-106848778	Strong transcription Bivalent Enhancer Weak transcription Active TSS Enhancers Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
13	nsv1020047	chr6:106597828-106912047	Bivalent/Poised TSS Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	31 gene(s)	inside rSNPs	diseases
14	nsv970664	chr6:106635267-106887670	Weak transcription Active TSS Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
15	nsv1030367	chr6:106667748-106802072	Weak transcription Strong transcription Active TSS Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
16	nsv538403	chr6:106667748-106802072	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
17	nsv521859	chr6:106675819-106703618	Weak transcription ZNF genes & repeats Enhancers Strong transcription Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	Chromatin interactive region	n/a	inside rSNPs	diseases
18	nsv520329	chr6:106683995-106703618	Enhancers Strong transcription Weak transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Active TSS	Chromatin interactive region	n/a	inside rSNPs	n/a
19	nsv870375	chr6:106696090-107047892	Weak transcription Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	31 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:87 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:106671600-106724400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
2	chr6:106675400-106705000	Weak transcription	K562	blood
3	chr6:106676400-106739200	Weak transcription	Small Intestine	intestine
4	chr6:106677600-106713000	Weak transcription	Brain Inferior Temporal Lobe	brain
5	chr6:106683400-106710000	Weak transcription	Fetal Stomach	stomach
6	chr6:106683400-106716600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
7	chr6:106684000-106710600	Weak transcription	Fetal Muscle Leg	muscle
8	chr6:106684000-106710800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
9	chr6:106684000-106720200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
10	chr6:106686000-106704000	Weak transcription	HepG2	liver
11	chr6:106686600-106710400	Weak transcription	Left Ventricle	heart
12	chr6:106688400-106710400	Weak transcription	Right Ventricle	heart
13	chr6:106689400-106710800	Weak transcription	Fetal Muscle Trunk	muscle
14	chr6:106689800-106734000	Weak transcription	Esophagus	oesophagus
15	chr6:106690200-106709800	Weak transcription	Fetal Intestine Small	intestine
16	chr6:106690400-106713200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
17	chr6:106691600-106706000	Weak transcription	Ovary	ovary
18	chr6:106694400-106710800	Weak transcription	Spleen	Spleen
19	chr6:106695800-106705600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
20	chr6:106695800-106709200	Weak transcription	Sigmoid Colon	Sigmoid Colon
21	chr6:106695800-106740800	Weak transcription	Brain Cingulate Gyrus	brain
22	chr6:106696000-106703800	Weak transcription	Liver	Liver
23	chr6:106696000-106708800	Weak transcription	Duodenum Smooth Muscle	Duodenum
24	chr6:106696000-106709800	Weak transcription	Primary T cells from cord blood	blood
25	chr6:106696000-106709800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
26	chr6:106696000-106710600	Weak transcription	Primary neutrophils fromperipheralblood	blood
27	chr6:106696000-106710800	Weak transcription	Primary T helper cells PMA-I stimulated	--
28	chr6:106696000-106711000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
29	chr6:106696000-106713200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
30	chr6:106696000-106717000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
31	chr6:106696000-106721400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
32	chr6:106696000-106722600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
33	chr6:106696000-106724800	Weak transcription	Placenta	Placenta
34	chr6:106696000-106725600	Weak transcription	Rectal Mucosa Donor 29	rectum
35	chr6:106696200-106709800	Weak transcription	Primary monocytes fromperipheralblood	blood
36	chr6:106696200-106710400	Weak transcription	Monocytes-CD14+_RO01746	blood
37	chr6:106696200-106710800	Weak transcription	Primary T cells fromperipheralblood	blood
38	chr6:106696200-106711000	Weak transcription	Primary T helper cells fromperipheralblood	blood
39	chr6:106696200-106716600	Weak transcription	HUES64 Cell Line	embryonic stem cell
40	chr6:106696200-106725400	Weak transcription	Dnd41	blood
41	chr6:106696200-106726000	Weak transcription	Rectal Mucosa Donor 31	rectum
42	chr6:106696600-106706800	Weak transcription	GM12878-XiMat	blood
43	chr6:106696600-106709600	Weak transcription	Primary B cells from peripheral blood	blood
44	chr6:106696600-106709800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
45	chr6:106696600-106710400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
46	chr6:106696600-106710400	Weak transcription	Duodenum Mucosa	Duodenum
47	chr6:106696600-106710800	Weak transcription	Fetal Thymus	thymus
48	chr6:106696600-106711000	Weak transcription	Primary hematopoietic stem cells	blood
49	chr6:106696600-106711000	Weak transcription	Thymus	Thymus
50	chr6:106696600-106725200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived

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