Variant report

Variant	rs1582
Chromosome Location	chr19:44830892-44830893
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr19:44830119..44832268-chr19:44837781..44840582,2	K562	blood:
2	chr19:44807899..44809893-chr19:44829834..44832203,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000159917	Chromatin interaction

Extended variants
information (count: 48 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs1233428	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1233441	0.96[CEU][hapmap];0.94[CHB][hapmap];0.88[CHD][hapmap];0.82[GIH][hapmap];0.88[JPT][hapmap];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1233444	0.95[CEU][hapmap];0.81[CHB][hapmap];0.85[CHD][hapmap];0.88[JPT][hapmap];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1233447	0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1233448	0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1233459	0.96[CEU][hapmap];0.89[CHB][hapmap];0.88[JPT][hapmap];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1233466	0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1233467	0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1233468	0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1233470	0.96[CEU][hapmap];0.88[CHB][hapmap];0.88[JPT][hapmap];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12974099	0.83[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs1434574	0.97[ASN][1000 genomes]
rs1808735	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1821458	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1821459	1.00[ASN][1000 genomes]
rs2571062	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2571065	0.83[CEU][hapmap];0.85[AMR][1000 genomes]
rs2571099	0.96[ASN][1000 genomes]
rs2571101	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2571102	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2571104	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2609874	0.95[CEU][hapmap];0.94[CHB][hapmap];0.94[JPT][hapmap];0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2609875	0.96[CEU][hapmap];0.94[CHB][hapmap];0.90[CHD][hapmap];0.82[GIH][hapmap];0.94[JPT][hapmap];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2609877	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2609880	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2609894	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2609895	0.83[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs2609896	0.97[ASN][1000 genomes]
rs2609897	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2609908	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2722714	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2722720	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2722721	0.83[YRI][hapmap]
rs2722722	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2722723	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2722725	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2722726	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2722727	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2722731	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2722737	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2722740	0.87[CEU][hapmap]
rs2722751	0.96[CEU][hapmap];0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4280359	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4325673	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4640292	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4802216	0.84[CEU][hapmap]
rs7249559	0.97[ASN][1000 genomes]
rs892595	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs1582	HAS1	cis	parietal	SCAN
rs1582	ZNF233	cis	lymphoblastoid	seeQTL
rs1582	ZNF233	Cis_1M	lymphoblastoid	RTeQTL
rs1582	FPR3	cis	cerebellum	SCAN

Chromatin state (count:64 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:44823200-44856200	ZNF genes & repeats	Liver	Liver
2	chr19:44824800-44841000	ZNF genes & repeats	Adipose Nuclei	Adipose
3	chr19:44825000-44846600	ZNF genes & repeats	Duodenum Smooth Muscle	Duodenum
4	chr19:44825800-44831800	Weak transcription	Right Ventricle	heart
5	chr19:44827400-44831200	Weak transcription	Brain Angular Gyrus	brain
6	chr19:44827800-44832000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
7	chr19:44828000-44845000	ZNF genes & repeats	HUES64 Cell Line	embryonic stem cell
8	chr19:44828200-44831600	Weak transcription	NH-A	brain
9	chr19:44828400-44846400	ZNF genes & repeats	Pancreatic Islets	Pancreatic Islet
10	chr19:44828600-44831000	ZNF genes & repeats	Brain Hippocampus Middle	brain
11	chr19:44828600-44832800	ZNF genes & repeats	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
12	chr19:44828600-44844200	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
13	chr19:44828600-44845600	ZNF genes & repeats	Fetal Lung	lung
14	chr19:44828600-44848800	ZNF genes & repeats	Fetal Brain Female	brain
15	chr19:44828600-44851000	ZNF genes & repeats	Breast Myoepithelial Primary Cells	Breast
16	chr19:44828800-44831200	ZNF genes & repeats	Foreskin Melanocyte Primary Cells skin03	Skin
17	chr19:44828800-44842600	ZNF genes & repeats	Duodenum Mucosa	Duodenum
18	chr19:44828800-44846200	ZNF genes & repeats	H9 Derived Neuron Cultured Cells	ES cell derived
19	chr19:44828800-44846400	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr19:44829000-44831600	Weak transcription	HSMMtube	muscle
21	chr19:44829000-44831800	Weak transcription	Muscle Satellite Cultured Cells	--
22	chr19:44829000-44832400	Weak transcription	Fetal Heart	heart
23	chr19:44829000-44844000	ZNF genes & repeats	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
24	chr19:44829200-44831200	Weak transcription	NHDF-Ad	bronchial
25	chr19:44829200-44831600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
26	chr19:44829200-44831600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
27	chr19:44829200-44831600	Weak transcription	Brain Anterior Caudate	brain
28	chr19:44829200-44831600	Weak transcription	Brain Cingulate Gyrus	brain
29	chr19:44829200-44831600	Weak transcription	Placenta	Placenta
30	chr19:44829200-44831600	Weak transcription	Rectal Smooth Muscle	rectum
31	chr19:44829200-44831800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
32	chr19:44829200-44831800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
33	chr19:44829200-44831800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
34	chr19:44829200-44831800	Weak transcription	Fetal Stomach	stomach
35	chr19:44829200-44841200	ZNF genes & repeats	Primary hematopoietic stem cells	blood
36	chr19:44829400-44831200	Weak transcription	Psoas Muscle	Psoas
37	chr19:44829400-44831600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
38	chr19:44829400-44831600	Weak transcription	Lung	lung
39	chr19:44829400-44831600	Weak transcription	Spleen	Spleen
40	chr19:44829400-44831600	Weak transcription	HSMM	muscle
41	chr19:44829400-44831800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
42	chr19:44829400-44831800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
43	chr19:44829600-44831600	Weak transcription	Placenta Amnion	Placenta Amnion
44	chr19:44829600-44831800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
45	chr19:44829800-44831200	Weak transcription	Ovary	ovary
46	chr19:44829800-44831600	Weak transcription	Left Ventricle	heart
47	chr19:44829800-44831600	Weak transcription	Pancreas	Pancrea
48	chr19:44829800-44831800	Weak transcription	HMEC	breast
49	chr19:44829800-44831800	Weak transcription	Osteobl	bone
50	chr19:44830000-44831000	ZNF genes & repeats	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

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