Variant report

Variant	rs16894959
Chromosome Location	chr6:34825662-34825663
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:34824500..34828463-chr6:34854420..34857556,3	MCF-7	breast:
2	chr6:34825507..34827584-chr6:34840818..34842443,2	MCF-7	breast:
3	chr6:34776609..34778206-chr6:34824620..34826578,2	K562	blood:

Variant related genes	Relation type
ENSG00000064999	Chromatin interaction
ENSG00000064995	Chromatin interaction

Extended variants
information (count: 73 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:55)

rs_ID	r²[population]
rs11756392	1.00[CEU][hapmap];0.92[YRI][hapmap];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11759235	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1555773	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1737726	0.80[AFR][1000 genomes]
rs1883638	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1997775	0.91[YRI][hapmap]
rs2395607	1.00[CHD][hapmap];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2504163	0.94[GIH][hapmap]
rs2744942	1.00[CEU][hapmap]
rs2744972	1.00[CEU][hapmap];1.00[CHD][hapmap];0.94[GIH][hapmap];0.89[MEX][hapmap];0.88[TSI][hapmap]
rs2764203	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2764204	0.85[EUR][1000 genomes]
rs2764205	1.00[CEU][hapmap];0.84[YRI][hapmap];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2814960	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2814962	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2815005	1.00[CEU][hapmap];1.00[CHD][hapmap];0.94[GIH][hapmap];0.89[MEX][hapmap];0.88[TSI][hapmap]
rs28567450	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3800457	1.00[CEU][hapmap];1.00[CHD][hapmap];0.94[GIH][hapmap];0.89[MEX][hapmap];0.88[TSI][hapmap]
rs4646925	0.82[GIH][hapmap]
rs56693020	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59142559	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60643641	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61431557	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6457790	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6911549	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6936177	1.00[CEU][hapmap];0.91[EUR][1000 genomes]
rs6938239	0.87[EUR][1000 genomes]
rs73419607	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73419621	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7755822	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7762485	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs847854	0.91[YRI][hapmap]
rs847855	0.91[YRI][hapmap]
rs9296130	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9296140	0.91[YRI][hapmap]
rs9462007	1.00[CEU][hapmap];1.00[CHD][hapmap];0.83[GIH][hapmap];0.81[LWK][hapmap];0.89[MEX][hapmap];0.83[MKK][hapmap];0.84[TSI][hapmap];0.84[YRI][hapmap]
rs9462012	0.82[EUR][1000 genomes]
rs9462014	1.00[CHD][hapmap];0.83[GIH][hapmap];0.83[EUR][1000 genomes]
rs9462016	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9462025	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9462029	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9469860	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9469864	1.00[CEU][hapmap];0.92[YRI][hapmap];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9469890	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9469895	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9469897	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9469900	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9469907	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9469910	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9469911	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9469913	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9469919	0.96[YRI][hapmap];0.80[AFR][1000 genomes]
rs9469926	0.90[YRI][hapmap]
rs9654581	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9688715	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:18 , 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	nsv885785	chr6:34404636-34874002	Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
4	nsv1033583	chr6:34471572-34828372	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
5	nsv885793	chr6:34520267-34886436	Active TSS Strong transcription Enhancers Weak transcription Flanking Active TSS Genic enhancers Bivalent Enhancer 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 miRNA target site	47 gene(s)	inside rSNPs	diseases
6	esv2763967	chr6:34566255-34925463	Weak transcription Active TSS Flanking Active TSS Enhancers Strong transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
7	nsv1020710	chr6:34607214-34890143	Strong transcription Active TSS Weak transcription Enhancers Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
8	nsv870010	chr6:34713359-34880048	Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region miRNA target site	33 gene(s)	inside rSNPs	diseases
9	nsv1025374	chr6:34723723-34887316	Flanking Active TSS Enhancers Weak transcription Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region miRNA target site	33 gene(s)	inside rSNPs	diseases
10	nsv462905	chr6:34728253-34886436	Enhancers Weak transcription Genic enhancers Flanking Active TSS Strong transcription Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region miRNA target site	30 gene(s)	inside rSNPs	diseases
11	nsv602906	chr6:34728253-34886436	Strong transcription Weak transcription Active TSS Enhancers Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region miRNA target site	30 gene(s)	inside rSNPs	diseases
12	nsv1028363	chr6:34733071-34859045	Weak transcription Active TSS Strong transcription Enhancers Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region miRNA target site	30 gene(s)	inside rSNPs	diseases
13	nsv1015792	chr6:34741917-34887316	Flanking Active TSS Weak transcription Strong transcription Enhancers Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region miRNA target site	30 gene(s)	inside rSNPs	diseases
14	nsv1021733	chr6:34751052-34887316	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region miRNA target site	30 gene(s)	inside rSNPs	diseases
15	nsv1016703	chr6:34784801-34827693	Strong transcription Enhancers Weak transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region miRNA target site	4 gene(s)	inside rSNPs	diseases
16	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
17	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
18	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

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs16894959	C6orf107	Cis_1M	lymphoblastoid	RTeQTL
rs16894959	C6orf106	cis	parietal	SCAN

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:34779400-34841000	Weak transcription	NH-A	brain
2	chr6:34786600-34838800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
3	chr6:34788200-34831800	Weak transcription	HUVEC	blood vessel
4	chr6:34788400-34826600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
5	chr6:34788400-34826800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
6	chr6:34788400-34830800	Weak transcription	Fetal Heart	heart
7	chr6:34804600-34826600	Weak transcription	NHEK	skin
8	chr6:34816800-34853600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr6:34817400-34851200	Strong transcription	Fetal Thymus	thymus
10	chr6:34818200-34829600	Strong transcription	HepG2	liver
11	chr6:34818600-34832800	Strong transcription	Fetal Stomach	stomach
12	chr6:34818600-34853400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
13	chr6:34818800-34829000	Strong transcription	Fetal Muscle Leg	muscle
14	chr6:34819000-34829400	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
15	chr6:34819000-34832000	Strong transcription	Fetal Intestine Large	intestine
16	chr6:34819000-34833000	Strong transcription	Liver	Liver
17	chr6:34819000-34842600	Strong transcription	Fetal Intestine Small	intestine
18	chr6:34819200-34833400	Strong transcription	Primary B cells from peripheral blood	blood
19	chr6:34819400-34831400	Weak transcription	Right Atrium	heart
20	chr6:34820200-34855000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
21	chr6:34821000-34854600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
22	chr6:34822200-34829400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
23	chr6:34822400-34826400	Strong transcription	K562	blood
24	chr6:34822400-34828800	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
25	chr6:34822400-34829800	Strong transcription	Dnd41	blood
26	chr6:34822400-34831400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
27	chr6:34822600-34828600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
28	chr6:34822600-34829800	Strong transcription	HUES6 Cell Line	embryonic stem cell
29	chr6:34822600-34829800	Strong transcription	Primary monocytes fromperipheralblood	blood
30	chr6:34822800-34828600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
31	chr6:34822800-34829000	Strong transcription	Duodenum Mucosa	Duodenum
32	chr6:34822800-34829600	Strong transcription	Lung	lung
33	chr6:34822800-34829800	Strong transcription	Placenta	Placenta
34	chr6:34822800-34830000	Strong transcription	Primary hematopoietic stem cells	blood
35	chr6:34822800-34833600	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
36	chr6:34822800-34849400	Strong transcription	Monocytes-CD14+_RO01746	blood
37	chr6:34823000-34828600	Strong transcription	Brain Inferior Temporal Lobe	brain
38	chr6:34823000-34828800	Strong transcription	Primary T cells from cord blood	blood
39	chr6:34823000-34828800	Strong transcription	HSMMtube	muscle
40	chr6:34823000-34829200	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
41	chr6:34823000-34829400	Strong transcription	Adipose Nuclei	Adipose
42	chr6:34823000-34829600	Strong transcription	Primary hematopoietic stem cells short term culture	blood
43	chr6:34823000-34829800	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
44	chr6:34823000-34829800	Strong transcription	Primary B cells from cord blood	blood
45	chr6:34823000-34829800	Strong transcription	Stomach Smooth Muscle	stomach
46	chr6:34823000-34830000	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
47	chr6:34823000-34832200	Strong transcription	Fetal Muscle Trunk	muscle
48	chr6:34823000-34832600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
49	chr6:34823000-34851600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
50	chr6:34823200-34826800	Strong transcription	Brain Substantia Nigra	brain

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