Variant report

Variant	rs11153668
Chromosome Location	chr6:117853061-117853062
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:117813535..117815634-chr6:117852194..117854765,2	K562	blood:

Extended variants
information (count: 17 )
Associated
traits (count: 6 )

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs11153669	0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11510517	0.94[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.98[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1501473	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17079332	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs210651	0.96[YRI][hapmap]
rs2134089	0.95[JPT][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2173891	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2173892	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4946263	0.95[CEU][hapmap];0.95[CHB][hapmap];0.92[CHD][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];0.89[MEX][hapmap];0.94[TSI][hapmap];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9285421	0.88[ASW][hapmap]
rs9285422	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9285423	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9285424	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9320606	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9374667	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap]
rs9387487	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532050	chr6:117528154-118203005	ZNF genes & repeats Enhancers Bivalent Enhancer Active TSS Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases

mRNA abundance (count:6)

SNP	Gene	Cis/trans	Tissue	Source
rs11153668	BRD7P3	cis	cerebellum	SCAN
rs11153668	BRD7P3	cis	parietal	SCAN
rs11153668	ZUFSP	cis	parietal	SCAN
rs11153668	LPIN2	trans	cerebellum	SCAN
rs11153668	BET3L	cis	parietal	SCAN
rs11153668	NT5DC1	cis	parietal	SCAN

Chromatin state (count:77 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:117819800-117868800	Weak transcription	Spleen	Spleen
2	chr6:117821600-117868800	Weak transcription	Rectal Smooth Muscle	rectum
3	chr6:117823200-117868800	Weak transcription	Stomach Smooth Muscle	stomach
4	chr6:117823200-117869600	Weak transcription	Small Intestine	intestine
5	chr6:117826400-117859800	Weak transcription	Rectal Mucosa Donor 29	rectum
6	chr6:117828000-117866200	Weak transcription	Esophagus	oesophagus
7	chr6:117834400-117861800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
8	chr6:117834400-117863600	Weak transcription	Gastric	stomach
9	chr6:117834800-117857400	Weak transcription	Aorta	Aorta
10	chr6:117834800-117860600	Weak transcription	Skeletal Muscle Female	skeletal muscle
11	chr6:117835200-117868800	Weak transcription	Colonic Mucosa	Colon
12	chr6:117835400-117868800	Weak transcription	Psoas Muscle	Psoas
13	chr6:117835800-117857600	Weak transcription	Placenta	Placenta
14	chr6:117836600-117861800	Weak transcription	Pancreas	Pancrea
15	chr6:117836600-117869600	Weak transcription	Stomach Mucosa	stomach
16	chr6:117837200-117860600	Weak transcription	Fetal Muscle Leg	muscle
17	chr6:117838600-117869000	Weak transcription	Ovary	ovary
18	chr6:117842000-117854200	Weak transcription	Sigmoid Colon	Sigmoid Colon
19	chr6:117842000-117860600	Weak transcription	Fetal Stomach	stomach
20	chr6:117842800-117866200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
21	chr6:117844000-117853200	Weak transcription	Duodenum Mucosa	Duodenum
22	chr6:117845200-117866200	Weak transcription	Skeletal Muscle Male	skeletal muscle
23	chr6:117845800-117868800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
24	chr6:117846800-117869600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
25	chr6:117847400-117857600	Weak transcription	NHEK	skin
26	chr6:117847600-117861800	Weak transcription	Duodenum Smooth Muscle	Duodenum
27	chr6:117848600-117856800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
28	chr6:117849800-117857400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
29	chr6:117851200-117853200	Genic enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
30	chr6:117851600-117853400	Enhancers	Cortex derived primary cultured neurospheres	brain
31	chr6:117851600-117853400	Enhancers	NHDF-Ad	bronchial
32	chr6:117851800-117853200	Genic enhancers	Muscle Satellite Cultured Cells	--
33	chr6:117851800-117854800	Weak transcription	Lung	lung
34	chr6:117851800-117856200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
35	chr6:117851800-117859800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
36	chr6:117851800-117860600	Weak transcription	Fetal Intestine Small	intestine
37	chr6:117851800-117868800	Weak transcription	Right Ventricle	heart
38	chr6:117852200-117857200	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
39	chr6:117852400-117853200	Enhancers	HUES64 Cell Line	embryonic stem cell
40	chr6:117852400-117853200	Genic enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
41	chr6:117852400-117853200	Genic enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
42	chr6:117852400-117853600	Enhancers	K562	blood
43	chr6:117852400-117857400	Strong transcription	HMEC	breast
44	chr6:117852400-117858600	Strong transcription	HepG2	liver
45	chr6:117852600-117853200	Enhancers	Right Atrium	heart
46	chr6:117852600-117853200	Genic enhancers	HSMM	muscle
47	chr6:117852600-117853200	Enhancers	HSMMtube	muscle
48	chr6:117852600-117853400	Enhancers	Left Ventricle	heart
49	chr6:117852600-117853600	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
50	chr6:117852600-117853600	Enhancers	Brain Cingulate Gyrus	brain

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