Variant report

Variant	rs6586161
Chromosome Location	chr10:90741259-90741260
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:90740958..90743337-chr10:90743863..90746089,2	MCF-7	breast:
2	chr10:90736541..90738043-chr10:90739542..90741763,2	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-ANKRD22-2	chr10:90741162-90742712	refGeneNc_781_NR_028371

Extended variants
information (count: 53 )
Associated
traits (count: 6 )

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

rs_ID	r²[population]
rs10788624	0.89[ASN][1000 genomes]
rs10887876	0.86[CHB][hapmap];0.88[CHD][hapmap];0.91[JPT][hapmap];0.89[ASN][1000 genomes]
rs10887877	0.85[ASN][1000 genomes]
rs11202917	0.87[ASN][1000 genomes]
rs11202918	0.89[ASN][1000 genomes]
rs11202922	0.85[ASN][1000 genomes]
rs12359362	0.84[ASN][1000 genomes]
rs12775501	0.84[ASN][1000 genomes]
rs1324551	0.91[CHB][hapmap];0.85[JPT][hapmap];0.85[ASN][1000 genomes]
rs1468063	0.86[JPT][hapmap]
rs1800682	0.91[CHB][hapmap];0.88[CHD][hapmap];0.83[JPT][hapmap];0.87[ASN][1000 genomes]
rs1926195	0.90[CHB][hapmap];0.81[JPT][hapmap];0.83[ASN][1000 genomes]
rs1926196	0.91[CHB][hapmap];0.88[CHD][hapmap];0.83[JPT][hapmap];0.85[ASN][1000 genomes]
rs1926197	0.87[ASN][1000 genomes]
rs1926199	0.87[ASN][1000 genomes]
rs1926200	0.87[ASN][1000 genomes]
rs1926201	0.87[ASN][1000 genomes]
rs2031610	0.83[ASN][1000 genomes]
rs2234767	0.85[ASN][1000 genomes]
rs3740286	0.91[CHB][hapmap];0.84[CHD][hapmap];0.84[ASN][1000 genomes]
rs3758485	0.87[ASN][1000 genomes]
rs3781204	0.86[ASN][1000 genomes]
rs3824729	0.85[ASN][1000 genomes]
rs3824730	0.91[CHB][hapmap];0.84[ASN][1000 genomes]
rs3903454	0.89[ASN][1000 genomes]
rs4934433	0.83[ASW][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.95[JPT][hapmap];0.96[LWK][hapmap];0.86[MKK][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs4934434	0.85[CHB][hapmap];0.84[CHD][hapmap];0.82[JPT][hapmap];0.87[ASN][1000 genomes]
rs6586160	0.95[CHB][hapmap];0.95[JPT][hapmap];0.94[ASN][1000 genomes]
rs6586163	0.91[CHB][hapmap];0.83[JPT][hapmap];0.85[ASN][1000 genomes]
rs6586164	0.91[CHB][hapmap];0.82[JPT][hapmap];0.85[ASN][1000 genomes]
rs6586165	0.91[CHB][hapmap];0.83[JPT][hapmap];0.84[ASN][1000 genomes]
rs6586166	0.83[ASN][1000 genomes]
rs6586167	0.91[CHB][hapmap];0.83[JPT][hapmap];0.83[ASN][1000 genomes]
rs7069061	0.84[ASN][1000 genomes]
rs7069841	0.90[ASN][1000 genomes]
rs7072828	0.84[ASN][1000 genomes]
rs7076197	0.86[ASN][1000 genomes]
rs7082101	0.90[ASN][1000 genomes]
rs7082720	0.90[ASN][1000 genomes]
rs7097467	0.90[CHB][hapmap];0.85[CHD][hapmap];0.91[JPT][hapmap];0.86[ASN][1000 genomes]
rs7097572	0.91[CHB][hapmap];0.88[CHD][hapmap];0.83[JPT][hapmap];0.85[ASN][1000 genomes]
rs7897395	0.84[ASN][1000 genomes]
rs7910660	0.88[ASN][1000 genomes]
rs7910825	0.81[CHB][hapmap];0.90[ASN][1000 genomes]
rs7914490	0.87[ASN][1000 genomes]
rs9325603	0.83[CHB][hapmap];0.95[JPT][hapmap];0.81[ASN][1000 genomes]
rs9658685	0.82[ASN][1000 genomes]
rs9658767	0.86[JPT][hapmap]
rs9658769	0.86[JPT][hapmap]
rs978522	0.85[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1042848	chr10:90466032-91318474	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer Strong transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	66 gene(s)	inside rSNPs	diseases
2	nsv540741	chr10:90466032-91318474	Enhancers Flanking Active TSS Weak transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Strong transcription Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	66 gene(s)	inside rSNPs	diseases
3	nsv831943	chr10:90664836-90865834	Weak transcription Flanking Active TSS Active TSS Strong transcription Enhancers Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	15 gene(s)	inside rSNPs	diseases

mRNA abundance (count:6)

SNP	Gene	Cis/trans	Tissue	Source
rs6586161	FAS	cis	brain	BrainEAC
rs6586161	FAS	cis	parietal	SCAN
rs6586161	ANKRD1	cis	cerebellum	SCAN
rs6586161	FAS	cis	temporal cortex	BrainEAC
rs6586161	ACTA2	cis	lymphoblastoid	seeQTL
rs6586161	ACTA2	cis	multi-tissue	Pritchard

Chromatin state (count:65 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:90735200-90749800	Weak transcription	Fetal Muscle Trunk	muscle
2	chr10:90735600-90741600	Weak transcription	Fetal Kidney	kidney
3	chr10:90735600-90746400	Weak transcription	HepG2	liver
4	chr10:90735600-90748600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
5	chr10:90735600-90749200	Weak transcription	Fetal Muscle Leg	muscle
6	chr10:90735600-90749200	Weak transcription	Rectal Mucosa Donor 29	rectum
7	chr10:90735800-90743800	Weak transcription	Primary T helper cells PMA-I stimulated	--
8	chr10:90735800-90746400	Weak transcription	Duodenum Mucosa	Duodenum
9	chr10:90736400-90742600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
10	chr10:90736400-90743200	Weak transcription	Primary T helper cells fromperipheralblood	blood
11	chr10:90738200-90741600	Enhancers	Liver	Liver
12	chr10:90738200-90741600	Enhancers	Fetal Lung	lung
13	chr10:90738200-90741600	Enhancers	Ovary	ovary
14	chr10:90738200-90744200	Enhancers	Breast Myoepithelial Primary Cells	Breast
15	chr10:90738200-90744800	Enhancers	Rectal Smooth Muscle	rectum
16	chr10:90738200-90747800	Enhancers	Colon Smooth Muscle	Colon
17	chr10:90738400-90741800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
18	chr10:90738400-90742600	Enhancers	Duodenum Smooth Muscle	Duodenum
19	chr10:90738800-90741600	Enhancers	Muscle Satellite Cultured Cells	--
20	chr10:90739000-90741600	Enhancers	HSMMtube	muscle
21	chr10:90739200-90741600	Enhancers	HSMM	muscle
22	chr10:90739200-90743000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
23	chr10:90739200-90745200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
24	chr10:90739400-90741600	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
25	chr10:90739400-90742600	Weak transcription	Brain Inferior Temporal Lobe	brain
26	chr10:90739400-90743800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
27	chr10:90739400-90745000	Weak transcription	HUES6 Cell Line	embryonic stem cell
28	chr10:90739400-90749400	Weak transcription	NHEK	skin
29	chr10:90739600-90741600	Enhancers	NHDF-Ad	bronchial
30	chr10:90739600-90742000	Weak transcription	Brain Hippocampus Middle	brain
31	chr10:90739600-90742000	Enhancers	Right Atrium	heart
32	chr10:90739600-90742200	Enhancers	Small Intestine	intestine
33	chr10:90739600-90742800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
34	chr10:90739600-90746400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
35	chr10:90739600-90747200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
36	chr10:90739600-90748600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
37	chr10:90739600-90749000	Weak transcription	Adipose Nuclei	Adipose
38	chr10:90739600-90749200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
39	chr10:90739800-90742600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
40	chr10:90739800-90742800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
41	chr10:90739800-90749200	Weak transcription	HMEC	breast
42	chr10:90740000-90741400	Enhancers	Fetal Intestine Large	intestine
43	chr10:90740000-90741600	Enhancers	Fetal Intestine Small	intestine
44	chr10:90740000-90741600	Enhancers	Gastric	stomach
45	chr10:90740200-90749200	Weak transcription	Left Ventricle	heart
46	chr10:90740400-90746400	Weak transcription	Skeletal Muscle Male	skeletal muscle
47	chr10:90740600-90743000	Enhancers	Stomach Mucosa	stomach
48	chr10:90740600-90745200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
49	chr10:90740800-90741600	Enhancers	Psoas Muscle	Psoas
50	chr10:90740800-90743000	Weak transcription	Fetal Stomach	stomach

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