Variant report

Variant	rs1417770
Chromosome Location	chr1:56721534-56721535
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	chr1:56716406..56718859-chr1:56719242..56721929,2	MCF-7	breast:

Extended variants
information (count: 50 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs1119073	0.88[CHB][hapmap]
rs1149646	0.82[AMR][1000 genomes]
rs1149648	0.83[AMR][1000 genomes]
rs1149651	0.85[AMR][1000 genomes]
rs1230036	0.96[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1234587	0.96[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12564025	0.80[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1341337	0.81[ASN][1000 genomes]
rs1417768	0.81[ASN][1000 genomes]
rs1935050	0.86[JPT][hapmap]
rs2246574	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2487318	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2792773	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2792794	0.94[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs2792795	0.97[ASN][1000 genomes]
rs2793660	0.97[ASN][1000 genomes]
rs2793661	1.00[CHB][hapmap];0.92[CHD][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs2793662	0.86[JPT][hapmap]
rs2793664	0.90[JPT][hapmap];0.96[ASN][1000 genomes]
rs4927308	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs706356	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs706358	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs706389	0.83[AMR][1000 genomes]
rs706392	0.83[AMR][1000 genomes]
rs706396	0.83[AMR][1000 genomes]
rs778388	0.96[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs778390	0.96[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs778391	0.96[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs778392	0.96[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs778393	0.96[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs778394	0.96[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs778396	0.91[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs778399	0.96[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs778400	0.96[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs778401	0.96[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs778402	0.95[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs778403	0.96[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs778404	0.96[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs778405	0.96[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs778409	0.96[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs778411	0.96[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs778415	0.82[AMR][1000 genomes]
rs778419	0.83[AMR][1000 genomes]
rs778421	0.83[AMR][1000 genomes]
rs778423	0.89[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs778427	0.83[AMR][1000 genomes]
rs801273	0.96[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs813574	0.81[AMR][1000 genomes]
rs947007	0.80[JPT][hapmap]
rs947008	0.80[JPT][hapmap]

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs1417770	CDCP2	cis	parietal	SCAN
rs1417770	HSPB11	cis	parietal	SCAN
rs1417770	DMRTB1	cis	cerebellum	SCAN

Chromatin state (count:35 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:56720000-56724200	Enhancers	Placenta	Placenta
2	chr1:56720200-56722000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
3	chr1:56720600-56724000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr1:56720800-56722200	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
5	chr1:56720800-56722200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
6	chr1:56720800-56724000	Enhancers	Adipose Nuclei	Adipose
7	chr1:56720800-56725200	Enhancers	Fetal Muscle Leg	muscle
8	chr1:56720800-56725400	Enhancers	Skeletal Muscle Male	skeletal muscle
9	chr1:56721000-56721600	Enhancers	Monocytes-CD14+_RO01746	blood
10	chr1:56721000-56722800	Enhancers	Colon Smooth Muscle	Colon
11	chr1:56721000-56722800	Enhancers	Duodenum Smooth Muscle	Duodenum
12	chr1:56721000-56723200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
13	chr1:56721000-56723600	Enhancers	Skeletal Muscle Female	skeletal muscle
14	chr1:56721200-56721600	Enhancers	Aorta	Aorta
15	chr1:56721200-56722000	Enhancers	Right Atrium	heart
16	chr1:56721200-56722200	Enhancers	Fetal Thymus	thymus
17	chr1:56721200-56722600	Enhancers	Osteobl	bone
18	chr1:56721200-56722800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
19	chr1:56721200-56722800	Enhancers	Fetal Stomach	stomach
20	chr1:56721200-56723000	Enhancers	Primary monocytes fromperipheralblood	blood
21	chr1:56721200-56723800	Enhancers	Fetal Lung	lung
22	chr1:56721200-56725000	Enhancers	Psoas Muscle	Psoas
23	chr1:56721400-56721600	Enhancers	Stomach Smooth Muscle	stomach
24	chr1:56721400-56721600	Flanking Active TSS	NHDF-Ad	bronchial
25	chr1:56721400-56721800	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
26	chr1:56721400-56721800	Enhancers	Fetal Muscle Trunk	muscle
27	chr1:56721400-56721800	Enhancers	Left Ventricle	heart
28	chr1:56721400-56721800	Enhancers	Spleen	Spleen
29	chr1:56721400-56721800	Enhancers	NHLF	lung
30	chr1:56721400-56722000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
31	chr1:56721400-56722200	Enhancers	Muscle Satellite Cultured Cells	--
32	chr1:56721400-56722200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
33	chr1:56721400-56722800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
34	chr1:56721400-56722800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
35	chr1:56721400-56722800	Enhancers	Primary neutrophils fromperipheralblood	blood

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