Variant report

Variant	rs2074473
Chromosome Location	chr6:30154199-30154200
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	chr6:30153704..30155997-chr6:30174654..30176677,2	MCF-7	breast:

Extended variants
information (count: 53 )
Associated
traits (count: 3 )

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

rs_ID	r²[population]
rs1573295	0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2074472	0.92[ASN][1000 genomes]
rs2106070	0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2106071	0.82[EUR][1000 genomes]
rs2107196	0.87[ASN][1000 genomes]
rs2284164	0.88[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2394737	0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2508029	0.89[ASN][1000 genomes]
rs28441239	0.82[ASN][1000 genomes]
rs2844782	0.89[ASN][1000 genomes]
rs2844786	0.89[ASN][1000 genomes]
rs3094131	0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs3094132	0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs3094139	0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3094140	0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs3094614	0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs3094615	0.85[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs3130381	0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs3130382	0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs3130383	0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs3130384	0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs3130386	0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs3130388	0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs3130389	0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3130391	0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs3130393	0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs3130394	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs3132665	0.86[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs3132668	0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs3132669	0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs3132671	0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs3132672	0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs3132673	0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3132674	0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6457164	0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6457165	0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6457167	0.86[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs718254	0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7382110	0.82[EUR][1000 genomes]
rs7383511	0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs757257	0.82[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs765977	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7763162	0.82[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7764012	0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7774730	0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs885914	0.83[ASN][1000 genomes]
rs885915	0.85[ASN][1000 genomes]
rs916568	0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs916571	0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs916572	0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9261539	0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9261543	0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9261546	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs2074473	ZKSCAN3	cis	parietal	SCAN
rs2074473	FKSG83	cis	parietal	SCAN
rs2074473	GRM4	cis	cerebellum	SCAN

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:30145000-30173800	Weak transcription	Right Atrium	heart
2	chr6:30148000-30155000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
3	chr6:30148000-30173000	Weak transcription	Fetal Heart	heart
4	chr6:30148200-30154800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
5	chr6:30149000-30156400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
6	chr6:30149200-30157400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
7	chr6:30149600-30155000	Weak transcription	NHEK	skin
8	chr6:30150000-30155000	Weak transcription	HSMM	muscle
9	chr6:30150000-30156400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr6:30150200-30156400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
11	chr6:30150200-30163400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
12	chr6:30150400-30154800	Weak transcription	Fetal Lung	lung
13	chr6:30150400-30157000	Weak transcription	Fetal Kidney	kidney
14	chr6:30150600-30179200	Weak transcription	Pancreatic Islets	Pancreatic Islet
15	chr6:30150800-30156200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
16	chr6:30151000-30154200	Weak transcription	NH-A	brain
17	chr6:30151600-30161400	Strong transcription	Primary T cells from cord blood	blood
18	chr6:30151800-30155000	Strong transcription	Brain Substantia Nigra	brain
19	chr6:30151800-30158200	Strong transcription	Brain Cingulate Gyrus	brain
20	chr6:30151800-30160400	Strong transcription	Thymus	Thymus
21	chr6:30151800-30160600	Strong transcription	Fetal Intestine Small	intestine
22	chr6:30151800-30170400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
23	chr6:30152000-30157200	Strong transcription	Primary hematopoietic stem cells	blood
24	chr6:30152000-30159200	Strong transcription	Brain Anterior Caudate	brain
25	chr6:30152000-30160200	Strong transcription	Fetal Brain Female	brain
26	chr6:30152000-30160200	Strong transcription	Sigmoid Colon	Sigmoid Colon
27	chr6:30152000-30160400	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
28	chr6:30152000-30160600	Strong transcription	Fetal Muscle Leg	muscle
29	chr6:30152000-30160800	Strong transcription	Primary T helper cells PMA-I stimulated	--
30	chr6:30152000-30166400	Strong transcription	Liver	Liver
31	chr6:30152000-30168000	Strong transcription	Fetal Intestine Large	intestine
32	chr6:30152000-30168200	Strong transcription	Primary T cells fromperipheralblood	blood
33	chr6:30152000-30168200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
34	chr6:30152000-30168200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
35	chr6:30152000-30169000	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
36	chr6:30152000-30170600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
37	chr6:30152000-30172400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
38	chr6:30152200-30154400	Strong transcription	Brain Germinal Matrix	brain
39	chr6:30152200-30154400	Strong transcription	NHLF	lung
40	chr6:30152200-30155000	Strong transcription	Gastric	stomach
41	chr6:30152200-30155200	Strong transcription	Cortex derived primary cultured neurospheres	brain
42	chr6:30152200-30159200	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
43	chr6:30152200-30159400	Strong transcription	Brain Inferior Temporal Lobe	brain
44	chr6:30152200-30159600	Strong transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
45	chr6:30152200-30159800	Strong transcription	Primary B cells from cord blood	blood
46	chr6:30152200-30159800	Strong transcription	Fetal Thymus	thymus
47	chr6:30152200-30160200	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
48	chr6:30152200-30160200	Strong transcription	Fetal Muscle Trunk	muscle
49	chr6:30152200-30160200	Strong transcription	Stomach Smooth Muscle	stomach
50	chr6:30152200-30160400	Strong transcription	Fetal Adrenal Gland	Adrenal Gland

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