Variant report

Variant	rs1009058
Chromosome Location	chr3:159587022-159587023
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:159585927..159588192-chr3:159592324..159594371,2	K562	blood:

Extended variants
information (count: 15 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs10936179	0.83[CEU][hapmap]
rs1497762	0.89[CEU][hapmap]
rs1553081	0.90[CEU][hapmap]
rs1675496	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2010748	0.90[CEU][hapmap]
rs33053	0.84[CEU][hapmap]
rs3889310	0.90[CEU][hapmap]
rs4679863	0.89[CEU][hapmap]
rs4679865	0.90[CEU][hapmap]
rs4680521	0.90[CEU][hapmap]
rs62270404	0.96[ASN][1000 genomes]
rs6780187	0.90[CEU][hapmap]
rs7639937	0.90[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv877698	chr3:159583518-159640152	Genic enhancers Weak transcription Enhancers Strong transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
2	nsv997776	chr3:159585097-159668421	Enhancers Weak transcription Genic enhancers Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:74 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:159572400-159589400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
2	chr3:159579400-159587400	Weak transcription	Fetal Intestine Small	intestine
3	chr3:159579400-159589600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr3:159579400-159589600	Weak transcription	H9 Cell Line	embryonic stem cell
5	chr3:159579600-159589200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
6	chr3:159579600-159589600	Weak transcription	H1 Cell Line	embryonic stem cell
7	chr3:159579600-159589600	Weak transcription	HUES48 Cell Line	embryonic stem cell
8	chr3:159579600-159599200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
9	chr3:159579600-159600600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr3:159579800-159588600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
11	chr3:159580000-159590200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
12	chr3:159580200-159587800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
13	chr3:159580200-159589400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
14	chr3:159580200-159589400	Weak transcription	NHEK	skin
15	chr3:159580200-159597600	Weak transcription	Spleen	Spleen
16	chr3:159583000-159600600	Weak transcription	Fetal Stomach	stomach
17	chr3:159583600-159589600	Weak transcription	Lung	lung
18	chr3:159583600-159589600	Weak transcription	Psoas Muscle	Psoas
19	chr3:159583600-159597600	Weak transcription	Aorta	Aorta
20	chr3:159584000-159588800	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
21	chr3:159584000-159599200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
22	chr3:159584400-159587200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
23	chr3:159584400-159588600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
24	chr3:159584400-159589400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
25	chr3:159584400-159591200	Weak transcription	Duodenum Smooth Muscle	Duodenum
26	chr3:159584600-159588800	Weak transcription	Rectal Smooth Muscle	rectum
27	chr3:159584600-159590200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
28	chr3:159584800-159588000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
29	chr3:159584800-159588600	Weak transcription	Colon Smooth Muscle	Colon
30	chr3:159585000-159587200	Strong transcription	NH-A	brain
31	chr3:159585000-159590000	Weak transcription	Stomach Smooth Muscle	stomach
32	chr3:159585000-159590000	Weak transcription	Hela-S3	cervix
33	chr3:159585000-159598800	Weak transcription	Fetal Brain Female	brain
34	chr3:159585200-159587400	Strong transcription	Primary hematopoietic stem cells	blood
35	chr3:159585200-159588200	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
36	chr3:159585200-159589400	Weak transcription	HUVEC	blood vessel
37	chr3:159585200-159593200	Weak transcription	Adipose Nuclei	Adipose
38	chr3:159585400-159587600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
39	chr3:159585400-159588600	Weak transcription	Skeletal Muscle Male	skeletal muscle
40	chr3:159585600-159587200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
41	chr3:159585600-159587400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
42	chr3:159585600-159587600	Strong transcription	HSMM	muscle
43	chr3:159585600-159588600	Weak transcription	A549	lung
44	chr3:159585600-159588800	Weak transcription	Brain Substantia Nigra	brain
45	chr3:159585600-159589400	Weak transcription	Muscle Satellite Cultured Cells	--
46	chr3:159585600-159589400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
47	chr3:159585600-159589400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
48	chr3:159585600-159589400	Weak transcription	Skeletal Muscle Female	skeletal muscle
49	chr3:159585600-159589600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
50	chr3:159585600-159589600	Weak transcription	Brain Cingulate Gyrus	brain

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