Variant report

Variant	rs9468368
Chromosome Location	chr6:28364949-28364950
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:28364273..28366438-chr6:28510597..28512229,2	K562	blood:
2	chr6:28364231..28371937-chr6:28372195..28378158,17	K562	blood:
3	chr6:28302194..28303885-chr6:28363135..28365627,2	K562	blood:
4	chr6:28302488..28304802-chr6:28363245..28366006,2	K562	blood:
5	chr6:28109361..28111458-chr6:28362788..28366324,4	K562	blood:

Variant related genes	Relation type
ENSG00000198315	Chromatin interaction
ENSG00000251877	Chromatin interaction
ENSG00000235109	Chromatin interaction

Extended variants
information (count: 88 )
Associated
traits (count: 10 )

rSNPs within LD-proxies of this variant (count:88)

rs_ID	r²[population]
rs1005127	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1054372	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1124131	0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11751693	0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11752496	0.91[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11752919	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs11754208	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11755942	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11760133	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12697938	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13201726	0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13201753	0.94[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];1.00[YRI][hapmap]
rs13207208	1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap];0.82[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs13210866	0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13215476	0.83[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs1339898	0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13437294	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1361385	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1416918	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1558205	0.96[CEU][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1591913	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16894021	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs16894060	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16894095	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs16894108	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1997660	0.83[CEU][hapmap]
rs2027361	0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2041230	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2071965	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs213228	0.91[CEU][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2531804	1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs28360638	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34513104	0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34924864	0.87[AFR][1000 genomes];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs35191424	0.89[AFR][1000 genomes];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35560946	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs35599905	0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs36018474	0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3734563	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3800328	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4254981	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4357130	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4580862	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4642462	0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs66542396	0.83[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs67211468	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6899389	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6899603	0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6903535	0.83[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs6907950	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6908137	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6917130	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs6922169	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6922374	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap];0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6922429	0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6927229	0.83[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs6928773	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6929825	0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6939966	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.82[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs707907	0.83[CEU][hapmap]
rs740621	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs740622	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7451726	0.84[ASN][1000 genomes]
rs7740351	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7749736	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7754960	0.80[YRI][hapmap]
rs7759191	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7764722	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7764737	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7773051	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7775132	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs853683	0.83[CEU][hapmap]
rs853690	0.83[CEU][hapmap]
rs853693	0.83[CEU][hapmap]
rs9461455	0.86[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9461456	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9461458	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9461459	0.96[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9468333	0.83[CEU][hapmap]
rs9468354	0.96[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9468355	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9468357	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9468360	0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9468361	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9468365	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9468366	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9468367	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9468370	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]

mRNA abundance (count:10)

SNP	Gene	Cis/trans	Tissue	Source
rs9468368	BTN3A2	Cis_chr	lymphoblastoid	RTeQTL
rs9468368	ZSCAN31	cis	Thyroid	GTEx
rs9468368	ZSCAN31	cis	Nerve Tibial	GTEx
rs9468368	ZSCAN31	cis	lung	GTEx
rs9468368	RP5-874C20.3	cis	Nerve Tibial	GTEx
rs9468368	AL022393.7	cis	Muscle Skeletal	GTEx
rs9468368	RP5-874C20.3	cis	Esophagus Muscularis	GTEx
rs9468368	RP5-874C20.3	cis	Thyroid	GTEx
rs9468368	ZSCAN12	Cis_1M	lymphoblastoid	RTeQTL
rs9468368	AL022393.7	cis	Heart Left Ventricle	GTEx

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:28352200-28365800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr6:28352600-28365400	Strong transcription	HUES64 Cell Line	embryonic stem cell
3	chr6:28352600-28365800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
4	chr6:28354200-28365600	Strong transcription	H1 Cell Line	embryonic stem cell
5	chr6:28358600-28365000	Weak transcription	Fetal Heart	heart
6	chr6:28359200-28365000	Weak transcription	Colon Smooth Muscle	Colon
7	chr6:28359200-28366000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
8	chr6:28359200-28366200	Weak transcription	Pancreatic Islets	Pancreatic Islet
9	chr6:28359200-28366600	Weak transcription	Right Ventricle	heart
10	chr6:28359400-28365800	Strong transcription	Primary hematopoietic stem cells short term culture	blood
11	chr6:28359400-28365800	Weak transcription	Gastric	stomach
12	chr6:28359400-28365800	Weak transcription	Rectal Mucosa Donor 31	rectum
13	chr6:28359400-28365800	Weak transcription	Small Intestine	intestine
14	chr6:28359400-28366000	Weak transcription	HSMMtube	muscle
15	chr6:28359400-28366600	Weak transcription	Psoas Muscle	Psoas
16	chr6:28359400-28366800	Weak transcription	Skeletal Muscle Female	skeletal muscle
17	chr6:28359600-28366800	Weak transcription	Primary neutrophils fromperipheralblood	blood
18	chr6:28359800-28366800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
19	chr6:28359800-28366800	Weak transcription	Skeletal Muscle Male	skeletal muscle
20	chr6:28360800-28365200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
21	chr6:28360800-28365800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
22	chr6:28360800-28366000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
23	chr6:28360800-28366600	Weak transcription	Colonic Mucosa	Colon
24	chr6:28361000-28365600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
25	chr6:28361000-28365600	Weak transcription	Brain Substantia Nigra	brain
26	chr6:28361000-28366600	Weak transcription	Fetal Kidney	kidney
27	chr6:28361000-28366800	Weak transcription	Aorta	Aorta
28	chr6:28361000-28366800	Weak transcription	Placenta	Placenta
29	chr6:28361200-28365000	Weak transcription	Liver	Liver
30	chr6:28361200-28365600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
31	chr6:28361200-28365600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
32	chr6:28361200-28366200	Weak transcription	Primary monocytes fromperipheralblood	blood
33	chr6:28361200-28366800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
34	chr6:28361400-28365400	Weak transcription	HSMM	muscle
35	chr6:28361400-28365600	Weak transcription	NHLF	lung
36	chr6:28361400-28365800	Weak transcription	Lung	lung
37	chr6:28361600-28365800	Weak transcription	Brain Hippocampus Middle	brain
38	chr6:28361800-28366800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
39	chr6:28362000-28365200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
40	chr6:28362200-28365800	Strong transcription	Primary B cells from cord blood	blood
41	chr6:28362400-28365400	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
42	chr6:28362400-28366200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
43	chr6:28362600-28365600	Strong transcription	iPS-18 Cell Line	embryonic stem cell
44	chr6:28362600-28365800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
45	chr6:28362600-28366200	Genic enhancers	Primary T helper cells fromperipheralblood	blood
46	chr6:28363000-28365200	Strong transcription	Primary B cells from peripheral blood	blood
47	chr6:28363000-28365600	Strong transcription	iPS-20b Cell Line	embryonic stem cell
48	chr6:28363000-28365800	Strong transcription	HUES48 Cell Line	embryonic stem cell
49	chr6:28363000-28366400	Transcr. at gene 5' and 3'	Dnd41	blood
50	chr6:28363200-28365000	Strong transcription	Primary T cells from cord blood	blood

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