Variant report

Variant	rs3172524
Chromosome Location	chr4:125587561-125587562
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:125585555..125587922-chr4:125647750..125649339,2	K562	blood:
2	chr4:125587353..125588970-chr4:125633384..125635430,2	K562	blood:

Variant related genes	Relation type
ENSG00000151458	Chromatin interaction

Extended variants
information (count: 53 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:53)

rs_ID	r²[population]
rs10006577	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10006893	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap];0.89[YRI][hapmap];0.80[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10013174	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10018651	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10028864	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1015968	0.87[ASN][1000 genomes]
rs1016382	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.96[AFR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1016383	0.87[ASN][1000 genomes]
rs10518442	0.86[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs12331436	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13104292	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13107141	0.86[ASN][1000 genomes]
rs13110120	0.92[CHB][hapmap];0.82[CHD][hapmap];0.81[GIH][hapmap];0.92[MEX][hapmap];0.87[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs13110982	0.92[CHB][hapmap];0.82[CHD][hapmap];0.81[GIH][hapmap];0.92[MEX][hapmap];0.86[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs13117832	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13130626	0.92[CHB][hapmap];0.82[CHD][hapmap];0.81[GIH][hapmap];0.92[MEX][hapmap];0.85[ASN][1000 genomes]
rs13144437	0.86[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs13150707	0.81[ASN][1000 genomes]
rs1472290	0.87[ASN][1000 genomes]
rs1495126	0.84[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs1495127	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1498024	0.83[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs17008475	0.86[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs17008478	0.86[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs1874748	0.86[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs1995135	0.87[ASN][1000 genomes]
rs2036204	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.89[YRI][hapmap];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs220738	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2242378	0.92[CHB][hapmap];0.82[CHD][hapmap];0.92[MEX][hapmap];0.82[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs28399027	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs34348208	0.86[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs34748024	0.87[ASN][1000 genomes]
rs34877613	0.86[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs35053443	0.87[ASN][1000 genomes]
rs35180555	0.84[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs35282937	0.84[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs35333384	0.86[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs35463553	0.82[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs35958270	0.86[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs36177260	0.99[AFR][1000 genomes];0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3733471	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4833999	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4834000	0.92[CHB][hapmap];0.82[CHD][hapmap];0.81[GIH][hapmap];0.92[MEX][hapmap];0.86[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs56902532	0.87[ASN][1000 genomes]
rs59841071	0.84[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs6534448	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6815682	0.81[ASN][1000 genomes]
rs6816263	0.85[CHB][hapmap];0.82[ASN][1000 genomes]
rs6849375	0.81[ASN][1000 genomes]
rs6849813	0.92[CHB][hapmap];0.82[CHD][hapmap];0.81[GIH][hapmap];0.92[MEX][hapmap];0.86[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs9307543	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9307544	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9999425	0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs3172524	NUDT6	cis	cerebellum	SCAN
rs3172524	ANKRD50	cis	parietal	SCAN

Chromatin state (count:73 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:125540000-125590200	Weak transcription	Aorta	Aorta
2	chr4:125553400-125590200	Weak transcription	HSMMtube	muscle
3	chr4:125553600-125587600	Weak transcription	Adipose Nuclei	Adipose
4	chr4:125554000-125591600	Weak transcription	Placenta Amnion	Placenta Amnion
5	chr4:125554800-125591200	Weak transcription	Fetal Kidney	kidney
6	chr4:125556800-125591200	Weak transcription	Esophagus	oesophagus
7	chr4:125561400-125590200	Weak transcription	H9 Cell Line	embryonic stem cell
8	chr4:125562200-125591400	Weak transcription	NHLF	lung
9	chr4:125563600-125587800	Weak transcription	Osteobl	bone
10	chr4:125563800-125589800	Weak transcription	NH-A	brain
11	chr4:125564600-125589800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
12	chr4:125564800-125590000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
13	chr4:125566600-125590200	Weak transcription	Brain Germinal Matrix	brain
14	chr4:125566800-125590000	Weak transcription	NHEK	skin
15	chr4:125568600-125590000	Weak transcription	Fetal Lung	lung
16	chr4:125569200-125591000	Weak transcription	Gastric	stomach
17	chr4:125570600-125591000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
18	chr4:125571000-125590000	Weak transcription	Stomach Smooth Muscle	stomach
19	chr4:125571200-125592000	Weak transcription	Skeletal Muscle Male	skeletal muscle
20	chr4:125571400-125591200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
21	chr4:125572400-125590000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
22	chr4:125572800-125589800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
23	chr4:125572800-125589800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
24	chr4:125572800-125590200	Weak transcription	Left Ventricle	heart
25	chr4:125572800-125591200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
26	chr4:125572800-125591200	Weak transcription	Fetal Intestine Small	intestine
27	chr4:125573000-125590200	Weak transcription	Fetal Stomach	stomach
28	chr4:125573200-125590200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
29	chr4:125579600-125590000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
30	chr4:125580400-125590000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
31	chr4:125583000-125590200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
32	chr4:125583400-125591800	Weak transcription	Psoas Muscle	Psoas
33	chr4:125583400-125595000	Strong transcription	HUVEC	blood vessel
34	chr4:125584200-125587600	Weak transcription	H1 Cell Line	embryonic stem cell
35	chr4:125584400-125590200	Weak transcription	Lung	lung
36	chr4:125584400-125591200	Weak transcription	Hela-S3	cervix
37	chr4:125584400-125593600	Strong transcription	NHDF-Ad	bronchial
38	chr4:125584600-125589800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
39	chr4:125584800-125591800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
40	chr4:125585400-125587800	Weak transcription	HUES48 Cell Line	embryonic stem cell
41	chr4:125585400-125588000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
42	chr4:125585600-125590600	Weak transcription	Ovary	ovary
43	chr4:125585800-125590200	Weak transcription	Primary hematopoietic stem cells	blood
44	chr4:125585800-125590200	Weak transcription	HMEC	breast
45	chr4:125586000-125590000	Weak transcription	HUES6 Cell Line	embryonic stem cell
46	chr4:125586200-125589800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
47	chr4:125586200-125590200	Weak transcription	Sigmoid Colon	Sigmoid Colon
48	chr4:125586400-125591000	Weak transcription	Brain Angular Gyrus	brain
49	chr4:125586400-125591200	Weak transcription	Dnd41	blood
50	chr4:125586600-125589800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--

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