Variant report

Variant	rs9394287
Chromosome Location	chr6:35216740-35216741
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:35165480..35167314-chr6:35214430..35217292,2	MCF-7	breast:
2	chr6:35215391..35219513-chr6:35220347..35223844,6	K562	blood:
3	chr6:35216569..35221401-chr6:35225274..35227948,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000065029	Chromatin interaction

Extended variants
information (count: 9 )
Associated
traits (count: 5 )

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs11751895	1.00[MKK][hapmap]
rs3800405	0.82[CEU][hapmap]
rs6457806	0.87[CEU][hapmap]
rs6939132	0.82[CEU][hapmap]
rs9394277	0.82[CEU][hapmap]
rs942373	0.82[CEU][hapmap];0.90[CHD][hapmap];0.86[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3428128	chr6:35150524-35225843	Bivalent Enhancer Enhancers Genic enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	esv2758047	chr6:35168116-35291002	Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Active TSS Weak transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
3	esv2759419	chr6:35168116-35291002	Weak transcription Flanking Active TSS Active TSS Enhancers Genic enhancers Strong transcription Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases

mRNA abundance (count:5)

SNP	Gene	Cis/trans	Tissue	Source
rs9394287	FKBP5	cis	lymphoblastoid	seeQTL
rs9394287	GRM4	cis	cerebellum	SCAN
rs9394287	MAPK13	cis	lymphoblastoid	seeQTL
rs9394287	C6orf106	cis	cerebellum	SCAN
rs9394287	NUDT3	cis	cerebellum	SCAN

Chromatin state (count:109 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:35191400-35226000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr6:35194000-35225600	Weak transcription	Primary B cells from cord blood	blood
3	chr6:35199600-35226600	Weak transcription	Esophagus	oesophagus
4	chr6:35199800-35226200	Weak transcription	Pancreas	Pancrea
5	chr6:35200600-35225000	Weak transcription	Fetal Brain Male	brain
6	chr6:35201400-35226200	Weak transcription	Stomach Mucosa	stomach
7	chr6:35202600-35225800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
8	chr6:35203400-35226000	Weak transcription	HSMMtube	muscle
9	chr6:35205600-35226000	Weak transcription	HSMM	muscle
10	chr6:35207400-35226200	Weak transcription	Placenta Amnion	Placenta Amnion
11	chr6:35207800-35224000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr6:35208200-35226000	Weak transcription	Primary hematopoietic stem cells	blood
13	chr6:35208400-35226000	Weak transcription	NHEK	skin
14	chr6:35208600-35220200	Strong transcription	Fetal Stomach	stomach
15	chr6:35209000-35216800	Weak transcription	H9 Cell Line	embryonic stem cell
16	chr6:35209000-35217400	Weak transcription	Colonic Mucosa	Colon
17	chr6:35209600-35216800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
18	chr6:35209800-35220000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
19	chr6:35209800-35226400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
20	chr6:35210000-35217000	Weak transcription	H1 Cell Line	embryonic stem cell
21	chr6:35210400-35219000	Weak transcription	Placenta	Placenta
22	chr6:35210600-35225400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
23	chr6:35211000-35226000	Weak transcription	Primary T helper cells fromperipheralblood	blood
24	chr6:35212000-35216800	Weak transcription	Skeletal Muscle Male	skeletal muscle
25	chr6:35212400-35226000	Weak transcription	Primary B cells from peripheral blood	blood
26	chr6:35213200-35226200	Weak transcription	Gastric	stomach
27	chr6:35213400-35216800	Weak transcription	Ovary	ovary
28	chr6:35213400-35218800	Weak transcription	Primary T helper cells PMA-I stimulated	--
29	chr6:35213400-35225600	Weak transcription	Fetal Kidney	kidney
30	chr6:35213400-35226000	Weak transcription	Cortex derived primary cultured neurospheres	brain
31	chr6:35213400-35226000	Weak transcription	NH-A	brain
32	chr6:35213600-35216800	Weak transcription	Sigmoid Colon	Sigmoid Colon
33	chr6:35213600-35225600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
34	chr6:35213800-35218600	Weak transcription	Spleen	Spleen
35	chr6:35213800-35219600	Weak transcription	Thymus	Thymus
36	chr6:35214000-35218600	Weak transcription	Lung	lung
37	chr6:35214000-35225000	Weak transcription	HepG2	liver
38	chr6:35214000-35225400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
39	chr6:35214000-35225800	Weak transcription	Primary T cells fromperipheralblood	blood
40	chr6:35214000-35226000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
41	chr6:35214200-35219400	Weak transcription	Primary T cells from cord blood	blood
42	chr6:35214400-35216800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
43	chr6:35214400-35217800	Weak transcription	Fetal Muscle Leg	muscle
44	chr6:35214400-35225000	Weak transcription	Brain Germinal Matrix	brain
45	chr6:35214400-35225400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
46	chr6:35214400-35225600	Weak transcription	Dnd41	blood
47	chr6:35214400-35225800	Weak transcription	Fetal Lung	lung
48	chr6:35214400-35226000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
49	chr6:35214400-35226600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
50	chr6:35214600-35216800	Weak transcription	Breast Myoepithelial Primary Cells	Breast

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