Variant report

Variant	rs10872032
Chromosome Location	chr6:109676776-109676777
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:109670785..109672543-chr6:109675154..109677381,2	MCF-7	breast:
2	chr6:109668992..109672376-chr6:109675520..109680148,6	K562	blood:
3	chr6:109675179..109679333-chr6:109679553..109683129,6	K562	blood:
4	chr6:109675670..109678253-chr6:109680723..109682896,2	MCF-7	breast:

Extended variants
information (count: 69 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:69)

rs_ID	r²[population]
rs10080429	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1040284	0.95[EUR][1000 genomes]
rs10457190	0.94[EUR][1000 genomes]
rs1048203	0.95[CEU][hapmap];0.93[GIH][hapmap];0.93[TSI][hapmap];0.92[EUR][1000 genomes]
rs10782161	0.92[EUR][1000 genomes]
rs10782162	0.90[CEU][hapmap];0.88[GIH][hapmap]
rs11153171	0.91[CEU][hapmap];0.88[EUR][1000 genomes]
rs11153174	0.95[CEU][hapmap];0.84[JPT][hapmap];0.95[EUR][1000 genomes]
rs11153175	0.95[CEU][hapmap];0.84[JPT][hapmap];0.95[EUR][1000 genomes]
rs11153176	0.95[EUR][1000 genomes]
rs11153177	0.92[EUR][1000 genomes]
rs11153180	0.92[EUR][1000 genomes]
rs11153181	0.92[EUR][1000 genomes]
rs11967108	0.95[CEU][hapmap];0.84[JPT][hapmap];0.95[EUR][1000 genomes]
rs12190920	0.95[CEU][hapmap];0.83[EUR][1000 genomes]
rs12190996	0.82[EUR][1000 genomes]
rs12192847	0.83[EUR][1000 genomes]
rs12193493	0.95[EUR][1000 genomes]
rs12197114	0.95[CEU][hapmap];0.92[EUR][1000 genomes]
rs12206928	0.93[EUR][1000 genomes]
rs12209691	0.83[EUR][1000 genomes]
rs12213313	0.92[EUR][1000 genomes]
rs12524273	0.94[EUR][1000 genomes]
rs12524639	0.95[CEU][hapmap];0.93[EUR][1000 genomes]
rs12528712	0.81[CEU][hapmap]
rs12528822	0.95[CEU][hapmap];0.83[JPT][hapmap];0.95[TSI][hapmap];0.93[EUR][1000 genomes]
rs13195517	0.81[CEU][hapmap]
rs13212766	0.92[EUR][1000 genomes]
rs1322816	0.94[EUR][1000 genomes]
rs1358997	0.94[EUR][1000 genomes]
rs1358998	0.95[CEU][hapmap];0.93[GIH][hapmap];0.95[TSI][hapmap];0.94[EUR][1000 genomes]
rs1546980	0.86[EUR][1000 genomes]
rs1590306	0.95[EUR][1000 genomes]
rs17070580	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];0.91[JPT][hapmap];0.84[LWK][hapmap];0.98[TSI][hapmap];0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1923725	0.95[CEU][hapmap];0.94[EUR][1000 genomes]
rs2236582	0.90[CEU][hapmap];0.93[GIH][hapmap];0.91[TSI][hapmap];0.91[EUR][1000 genomes]
rs2275650	0.95[CEU][hapmap];0.93[GIH][hapmap];0.83[JPT][hapmap];0.95[TSI][hapmap];0.95[EUR][1000 genomes]
rs2884037	0.88[YRI][hapmap]
rs34202013	0.95[EUR][1000 genomes]
rs35056702	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs36035949	0.94[EUR][1000 genomes]
rs36099706	0.92[EUR][1000 genomes]
rs3757234	0.95[CEU][hapmap];0.94[EUR][1000 genomes]
rs3778475	0.95[EUR][1000 genomes]
rs3778477	0.85[EUR][1000 genomes]
rs3799839	0.94[EUR][1000 genomes]
rs3807005	0.83[EUR][1000 genomes]
rs3818934	0.95[EUR][1000 genomes]
rs59906308	0.90[EUR][1000 genomes]
rs6911838	0.91[CEU][hapmap]
rs6920962	0.91[CEU][hapmap];0.81[YRI][hapmap];0.86[EUR][1000 genomes]
rs6929023	0.94[EUR][1000 genomes]
rs7372	0.95[EUR][1000 genomes]
rs752262	0.86[EUR][1000 genomes]
rs7773095	0.95[CEU][hapmap];0.93[GIH][hapmap];0.93[TSI][hapmap];0.92[EUR][1000 genomes]
rs9320287	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];0.91[JPT][hapmap];0.86[LWK][hapmap];0.98[TSI][hapmap];0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9480933	0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9480948	0.95[CEU][hapmap];0.93[GIH][hapmap];0.93[TSI][hapmap];0.92[EUR][1000 genomes]
rs9480951	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9480953	1.00[CEU][hapmap];1.00[CHB][hapmap];0.87[JPT][hapmap];0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9480955	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9480957	0.95[CEU][hapmap];0.93[GIH][hapmap];0.93[TSI][hapmap];0.91[EUR][1000 genomes]
rs9487068	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9487094	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];0.91[JPT][hapmap];0.86[LWK][hapmap];0.98[TSI][hapmap];0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9487095	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9487097	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9487098	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9487100	0.95[CEU][hapmap];0.92[EUR][1000 genomes]
rs9885646	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];0.91[JPT][hapmap];0.98[TSI][hapmap];0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs10872032	SMPD2	cis	Whole Blood	GTEx
rs10872032	ZBTB24	Cis_1M	lymphoblastoid	RTeQTL
rs10872032	MICAL1	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:112 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:109658800-109677000	Weak transcription	Fetal Stomach	stomach
2	chr6:109660200-109677200	Weak transcription	Thymus	Thymus
3	chr6:109662600-109682000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
4	chr6:109662800-109677000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr6:109665600-109677000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
6	chr6:109665600-109680400	Weak transcription	Placenta Amnion	Placenta Amnion
7	chr6:109666000-109678000	Weak transcription	Fetal Kidney	kidney
8	chr6:109669000-109683400	Weak transcription	Pancreatic Islets	Pancreatic Islet
9	chr6:109669600-109677000	Weak transcription	Brain Hippocampus Middle	brain
10	chr6:109669600-109677200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
11	chr6:109669800-109677200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
12	chr6:109671000-109677800	Weak transcription	Rectal Smooth Muscle	rectum
13	chr6:109671000-109681600	Weak transcription	Brain Cingulate Gyrus	brain
14	chr6:109671200-109677000	Weak transcription	Aorta	Aorta
15	chr6:109671200-109677200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr6:109671200-109680200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
17	chr6:109671200-109681400	Weak transcription	Brain Anterior Caudate	brain
18	chr6:109671400-109677200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
19	chr6:109671400-109677200	Weak transcription	A549	lung
20	chr6:109671400-109677600	Weak transcription	HepG2	liver
21	chr6:109671400-109677800	Weak transcription	Fetal Lung	lung
22	chr6:109671600-109677000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
23	chr6:109671600-109678200	Weak transcription	Colon Smooth Muscle	Colon
24	chr6:109672000-109683000	Weak transcription	Esophagus	oesophagus
25	chr6:109672200-109677000	Weak transcription	Fetal Muscle Trunk	muscle
26	chr6:109672600-109677400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
27	chr6:109672600-109677800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
28	chr6:109672800-109677200	Weak transcription	Lung	lung
29	chr6:109673000-109677400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
30	chr6:109673000-109680200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
31	chr6:109673200-109681600	Weak transcription	Pancreas	Pancrea
32	chr6:109673400-109677200	Weak transcription	HUES6 Cell Line	embryonic stem cell
33	chr6:109673400-109677200	Weak transcription	Brain Substantia Nigra	brain
34	chr6:109673400-109677800	Weak transcription	NHLF	lung
35	chr6:109673600-109676800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
36	chr6:109673600-109677200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
37	chr6:109673600-109677200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
38	chr6:109673600-109677600	Weak transcription	NHDF-Ad	bronchial
39	chr6:109673600-109678000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
40	chr6:109673600-109678000	Weak transcription	HSMMtube	muscle
41	chr6:109673600-109680400	Weak transcription	Spleen	Spleen
42	chr6:109673600-109681800	Weak transcription	Skeletal Muscle Male	skeletal muscle
43	chr6:109673600-109683000	Weak transcription	Psoas Muscle	Psoas
44	chr6:109673600-109683200	Weak transcription	HMEC	breast
45	chr6:109673600-109683400	Weak transcription	Gastric	stomach
46	chr6:109673600-109683400	Weak transcription	HUVEC	blood vessel
47	chr6:109673600-109687000	Weak transcription	Right Ventricle	heart
48	chr6:109673800-109677000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
49	chr6:109673800-109677000	Weak transcription	NHEK	skin
50	chr6:109673800-109677200	Weak transcription	Colonic Mucosa	Colon

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