Variant report

Variant	rs16894106
Chromosome Location	chr6:28400339-28400340
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	chr6:28392901..28395106-chr6:28398520..28400756,3	K562	blood:

Extended variants
information (count: 49 )
Associated
traits (count: 13 )

rSNPs within LD-proxies of this variant (count:49)

rs_ID	r²[population]
rs1005126	1.00[CEU][hapmap];1.00[CHB][hapmap];0.82[YRI][hapmap];0.80[AFR][1000 genomes];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10807030	0.82[ASN][1000 genomes]
rs10807031	0.82[ASN][1000 genomes]
rs11751928	1.00[CHB][hapmap];0.86[ASN][1000 genomes]
rs11752919	0.83[ASW][hapmap]
rs11755387	0.90[CHB][hapmap]
rs11756111	0.84[LWK][hapmap]
rs13190937	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.93[LWK][hapmap];0.89[MEX][hapmap];0.84[MKK][hapmap];0.89[YRI][hapmap];0.91[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs13193272	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13196606	0.88[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];0.89[LWK][hapmap];0.95[MEX][hapmap];0.97[TSI][hapmap];0.83[YRI][hapmap];0.80[AFR][1000 genomes];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs13199081	0.95[CEU][hapmap];1.00[CHB][hapmap];0.81[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs13203055	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13209596	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13215804	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.94[MEX][hapmap];0.98[MKK][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.89[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs13217326	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1474589	0.81[ASW][hapmap]
rs16894011	0.90[CHB][hapmap]
rs16894091	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16894116	0.81[CEU][hapmap]
rs16901847	0.81[CEU][hapmap]
rs17856167	0.90[CHB][hapmap]
rs2021745	0.82[YRI][hapmap]
rs2071965	0.83[ASW][hapmap];0.85[MEX][hapmap]
rs2108923	0.82[ASN][1000 genomes]
rs2232427	0.90[CHB][hapmap];0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs28505234	0.86[ASN][1000 genomes]
rs35908902	0.82[ASN][1000 genomes]
rs3799499	0.88[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[CHD][hapmap];0.96[GIH][hapmap];0.89[LWK][hapmap];0.89[MKK][hapmap];0.97[TSI][hapmap];0.82[YRI][hapmap];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3799500	1.00[CHB][hapmap];0.86[ASN][1000 genomes]
rs3800328	0.94[ASW][hapmap];0.85[MEX][hapmap]
rs4254981	0.88[ASW][hapmap];0.81[MEX][hapmap]
rs57071502	0.86[ASN][1000 genomes]
rs58020991	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6899389	0.88[ASW][hapmap];0.81[MEX][hapmap]
rs6902687	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[YRI][hapmap];0.96[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6905380	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6922169	0.88[ASW][hapmap];0.81[MEX][hapmap]
rs6928773	0.83[ASW][hapmap];0.81[MEX][hapmap]
rs6931359	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6940744	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs71559081	0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7740429	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7750526	0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7754960	1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[YRI][hapmap];0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7774981	0.88[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.96[GIH][hapmap];0.89[LWK][hapmap];0.95[MEX][hapmap];0.89[MKK][hapmap];0.97[TSI][hapmap];0.83[YRI][hapmap];0.80[AFR][1000 genomes];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9468356	0.82[CHB][hapmap];0.86[ASN][1000 genomes]
rs9468358	1.00[CHB][hapmap];0.86[ASN][1000 genomes]
rs9468364	0.89[CHB][hapmap]
rs9969098	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

mRNA abundance (count:13)

SNP	Gene	Cis/trans	Tissue	Source
rs16894106	ZNF192	cis	cerebellum	SCAN
rs16894106	BTN3A2	Cis_chr	lymphoblastoid	RTeQTL
rs16894106	NKAPL	cis	parietal	SCAN
rs16894106	TRIM38	cis	cerebellum	SCAN
rs16894106	ZSCAN23	cis	cerebellum	SCAN
rs16894106	ZNF187	cis	cerebellum	SCAN
rs16894106	ZSCAN12	Cis_1M	lymphoblastoid	RTeQTL
rs16894106	ZNF323	cis	parietal	SCAN
rs16894106	ZSCAN23	cis	parietal	SCAN
rs16894106	ZSCAN23	cis	Artery Tibial	GTEx
rs16894106	AL022393.7	cis	Muscle Skeletal	GTEx
rs16894106	RP5-874C20.3	cis	Esophagus Muscularis	GTEx
rs16894106	BTN3A2///BTN3A3	Cis_chr	lymphoblastoid	RTeQTL

Chromatin state (count:79 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:28371200-28410400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr6:28384600-28410200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr6:28385400-28402000	Weak transcription	Fetal Kidney	kidney
4	chr6:28385400-28402200	Weak transcription	H1 Cell Line	embryonic stem cell
5	chr6:28385600-28410800	Weak transcription	Lung	lung
6	chr6:28386000-28402200	Weak transcription	Osteobl	bone
7	chr6:28386000-28410400	Weak transcription	Rectal Mucosa Donor 29	rectum
8	chr6:28386800-28402200	Weak transcription	Placenta Amnion	Placenta Amnion
9	chr6:28387800-28410200	Weak transcription	Brain Angular Gyrus	brain
10	chr6:28388000-28410400	Weak transcription	NHDF-Ad	bronchial
11	chr6:28389200-28410200	Weak transcription	NHLF	lung
12	chr6:28389400-28403200	Weak transcription	Adipose Nuclei	Adipose
13	chr6:28389400-28410000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
14	chr6:28389600-28409800	Weak transcription	Brain Cingulate Gyrus	brain
15	chr6:28389600-28410200	Weak transcription	H9 Cell Line	embryonic stem cell
16	chr6:28389600-28410400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
17	chr6:28389600-28410400	Weak transcription	Skeletal Muscle Female	skeletal muscle
18	chr6:28389800-28410800	Weak transcription	Colonic Mucosa	Colon
19	chr6:28390200-28410400	Weak transcription	Rectal Smooth Muscle	rectum
20	chr6:28391400-28402400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
21	chr6:28391400-28410400	Weak transcription	Fetal Intestine Large	intestine
22	chr6:28391400-28410800	Weak transcription	Placenta	Placenta
23	chr6:28391600-28401800	Weak transcription	HUES48 Cell Line	embryonic stem cell
24	chr6:28391600-28402000	Weak transcription	Brain Hippocampus Middle	brain
25	chr6:28391600-28402000	Weak transcription	Left Ventricle	heart
26	chr6:28391600-28402000	Weak transcription	Psoas Muscle	Psoas
27	chr6:28391600-28402200	Weak transcription	HSMMtube	muscle
28	chr6:28391600-28402200	Weak transcription	NH-A	brain
29	chr6:28391600-28410200	Weak transcription	Brain Anterior Caudate	brain
30	chr6:28391600-28410800	Weak transcription	Pancreas	Pancrea
31	chr6:28392000-28410200	Weak transcription	Muscle Satellite Cultured Cells	--
32	chr6:28392000-28410400	Weak transcription	NHEK	skin
33	chr6:28392200-28402000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
34	chr6:28392200-28410400	Weak transcription	Right Ventricle	heart
35	chr6:28392400-28410000	Weak transcription	HMEC	breast
36	chr6:28392400-28410400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
37	chr6:28393600-28410800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
38	chr6:28393800-28402400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
39	chr6:28393800-28404200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
40	chr6:28393800-28410600	Weak transcription	Aorta	Aorta
41	chr6:28394000-28401800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
42	chr6:28394200-28409800	Weak transcription	Fetal Heart	heart
43	chr6:28394400-28405000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
44	chr6:28394800-28402000	Weak transcription	Primary hematopoietic stem cells	blood
45	chr6:28395200-28401000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
46	chr6:28395200-28402200	Weak transcription	Primary T cells from cord blood	blood
47	chr6:28395200-28403800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
48	chr6:28395200-28410200	Weak transcription	Brain Inferior Temporal Lobe	brain
49	chr6:28395400-28409400	Weak transcription	Fetal Brain Male	brain
50	chr6:28395800-28400800	Weak transcription	HUES64 Cell Line	embryonic stem cell

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