Variant report

Variant	rs9862259
Chromosome Location	chr3:43463613-43463614
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:43460060..43463983-chr3:43465462..43468851,3	K562	blood:
2	chr3:43461327..43463781-chr3:43520762..43522812,2	K562	blood:

Extended variants
information (count: 41 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs1013758	0.96[CEU][hapmap];1.00[CHB][hapmap];0.81[CHD][hapmap];0.95[GIH][hapmap];0.82[JPT][hapmap];0.86[TSI][hapmap];0.82[ASN][1000 genomes]
rs10461013	0.92[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11130004	0.89[CEU][hapmap];1.00[GIH][hapmap];0.84[TSI][hapmap];0.80[EUR][1000 genomes]
rs11130005	0.96[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.80[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11715896	0.82[EUR][1000 genomes]
rs12486736	0.81[EUR][1000 genomes]
rs12492694	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12638282	0.89[CEU][hapmap];1.00[GIH][hapmap];0.84[TSI][hapmap];0.81[EUR][1000 genomes]
rs13066902	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13095863	0.91[ASW][hapmap];0.95[LWK][hapmap];0.83[MEX][hapmap];0.86[MKK][hapmap];1.00[YRI][hapmap]
rs1351631	0.89[CEU][hapmap];1.00[GIH][hapmap];0.84[TSI][hapmap];0.85[EUR][1000 genomes]
rs1384435	0.89[CEU][hapmap];1.00[GIH][hapmap];0.84[TSI][hapmap];0.81[EUR][1000 genomes]
rs1564434	0.89[CEU][hapmap];1.00[GIH][hapmap];0.84[TSI][hapmap];0.85[EUR][1000 genomes]
rs1842806	0.87[EUR][1000 genomes]
rs1842807	0.96[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1975997	0.89[CEU][hapmap];1.00[GIH][hapmap];0.86[TSI][hapmap];0.85[EUR][1000 genomes]
rs2101064	0.85[CEU][hapmap];0.93[GIH][hapmap];0.84[TSI][hapmap];0.81[EUR][1000 genomes]
rs34823561	0.81[ASN][1000 genomes]
rs3772160	0.96[CEU][hapmap];1.00[CHB][hapmap];0.84[CHD][hapmap];0.95[GIH][hapmap];0.82[JPT][hapmap];0.86[TSI][hapmap];0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4128530	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4264704	0.85[EUR][1000 genomes]
rs4407383	0.92[CEU][hapmap];1.00[GIH][hapmap];0.95[TSI][hapmap];0.96[EUR][1000 genomes]
rs4505672	0.88[CEU][hapmap];0.87[EUR][1000 genomes]
rs4547674	0.92[CEU][hapmap];1.00[GIH][hapmap];0.95[TSI][hapmap];0.97[EUR][1000 genomes]
rs4561805	0.97[EUR][1000 genomes]
rs61102363	0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6769576	0.89[CEU][hapmap];1.00[GIH][hapmap];0.95[TSI][hapmap];0.96[EUR][1000 genomes]
rs6793392	1.00[ASW][hapmap];0.90[GIH][hapmap];0.91[LWK][hapmap];0.96[MEX][hapmap];0.89[MKK][hapmap];1.00[YRI][hapmap]
rs737516	0.89[CEU][hapmap];1.00[GIH][hapmap];0.84[TSI][hapmap];0.81[EUR][1000 genomes]
rs7621298	1.00[ASW][hapmap];0.93[GIH][hapmap];0.95[LWK][hapmap];0.96[MEX][hapmap];0.91[MKK][hapmap];1.00[YRI][hapmap]
rs9311340	0.89[CEU][hapmap];1.00[GIH][hapmap];0.84[TSI][hapmap];0.85[EUR][1000 genomes]
rs9809643	0.96[CEU][hapmap];1.00[CHB][hapmap];0.84[CHD][hapmap];0.91[GIH][hapmap];0.82[JPT][hapmap];0.86[TSI][hapmap];0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9814737	0.80[EUR][1000 genomes]
rs9815196	0.89[CEU][hapmap];1.00[GIH][hapmap];0.84[TSI][hapmap];0.85[EUR][1000 genomes]
rs9824990	0.92[CEU][hapmap];0.97[EUR][1000 genomes]
rs9829067	0.81[EUR][1000 genomes]
rs9830697	0.89[CEU][hapmap];0.85[EUR][1000 genomes]
rs9835793	0.85[EUR][1000 genomes]
rs9845142	0.97[EUR][1000 genomes]
rs9873316	0.80[EUR][1000 genomes]
rs9881028	0.85[EUR][1000 genomes]

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs9862259	ANO10	cis	Whole Blood	GTEx
rs9862259	SNRK	cis	cerebellum	SCAN
rs9862259	PTH1R	cis	parietal	SCAN
rs9862259	RPL14	cis	parietal	SCAN

Chromatin state (count:51 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:43432000-43477800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
2	chr3:43436400-43475800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
3	chr3:43440800-43464400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr3:43443000-43495600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
5	chr3:43443400-43465800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
6	chr3:43447000-43465800	Weak transcription	Monocytes-CD14+_RO01746	blood
7	chr3:43447800-43481200	Weak transcription	Lung	lung
8	chr3:43448200-43464800	Weak transcription	Muscle Satellite Cultured Cells	--
9	chr3:43448200-43464800	Weak transcription	Osteobl	bone
10	chr3:43449000-43473000	Weak transcription	Rectal Mucosa Donor 31	rectum
11	chr3:43449000-43474400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
12	chr3:43449200-43465600	Weak transcription	HMEC	breast
13	chr3:43451000-43473000	Weak transcription	Duodenum Mucosa	Duodenum
14	chr3:43453600-43467000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
15	chr3:43455600-43464000	Weak transcription	Psoas Muscle	Psoas
16	chr3:43455600-43475400	Weak transcription	Fetal Muscle Trunk	muscle
17	chr3:43455600-43484400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
18	chr3:43455800-43465800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
19	chr3:43455800-43473000	Weak transcription	Fetal Stomach	stomach
20	chr3:43455800-43473600	Weak transcription	Brain Anterior Caudate	brain
21	chr3:43455800-43477200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
22	chr3:43456600-43467200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
23	chr3:43457000-43492800	Weak transcription	K562	blood
24	chr3:43459000-43476000	Weak transcription	Rectal Mucosa Donor 29	rectum
25	chr3:43459800-43472800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
26	chr3:43459800-43496400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
27	chr3:43460400-43466000	Weak transcription	Fetal Intestine Small	intestine
28	chr3:43460600-43465000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
29	chr3:43460600-43466800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
30	chr3:43460600-43473000	Weak transcription	Duodenum Smooth Muscle	Duodenum
31	chr3:43460600-43476000	Weak transcription	Spleen	Spleen
32	chr3:43460800-43463800	Weak transcription	Left Ventricle	heart
33	chr3:43460800-43464000	Weak transcription	Skeletal Muscle Female	skeletal muscle
34	chr3:43460800-43464200	Weak transcription	Colon Smooth Muscle	Colon
35	chr3:43460800-43464200	Weak transcription	Rectal Smooth Muscle	rectum
36	chr3:43460800-43464600	Weak transcription	Skeletal Muscle Male	skeletal muscle
37	chr3:43460800-43464600	Weak transcription	Stomach Smooth Muscle	stomach
38	chr3:43460800-43464800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
39	chr3:43460800-43464800	Weak transcription	Right Ventricle	heart
40	chr3:43460800-43464800	Weak transcription	Stomach Mucosa	stomach
41	chr3:43460800-43466000	Weak transcription	Adipose Nuclei	Adipose
42	chr3:43460800-43466400	Weak transcription	Fetal Muscle Leg	muscle
43	chr3:43460800-43473000	Weak transcription	Aorta	Aorta
44	chr3:43460800-43496400	Weak transcription	HSMM	muscle
45	chr3:43461000-43474800	Weak transcription	Brain Hippocampus Middle	brain
46	chr3:43461000-43475400	Weak transcription	Fetal Lung	lung
47	chr3:43461200-43464800	Weak transcription	Right Atrium	heart
48	chr3:43461200-43466000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
49	chr3:43461200-43476000	Weak transcription	HUVEC	blood vessel
50	chr3:43462600-43464400	Enhancers	Pancreas	Pancrea

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