Variant report

Variant	rs336384
Chromosome Location	chr4:143089849-143089850
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 67 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:62)

rs_ID	r²[population]
rs1219266	0.89[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.88[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.92[YRI][hapmap];0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1219268	1.00[CEU][hapmap];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1219269	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];0.87[MKK][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1219270	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1219271	0.88[CHB][hapmap];0.94[JPT][hapmap];0.81[ASN][1000 genomes]
rs1219272	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1219273	0.88[CHB][hapmap];0.94[JPT][hapmap];0.84[ASN][1000 genomes]
rs1219274	0.88[CHB][hapmap];0.84[CHD][hapmap];0.94[JPT][hapmap];0.84[ASN][1000 genomes]
rs1219275	1.00[CHB][hapmap];0.83[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];0.80[MKK][hapmap];0.91[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs12500144	0.89[EUR][1000 genomes]
rs1390994	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1497139	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1532450	1.00[CEU][hapmap];0.96[EUR][1000 genomes]
rs182862	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1907113	1.00[CEU][hapmap]
rs1907119	1.00[CEU][hapmap];0.96[TSI][hapmap]
rs1907120	0.83[JPT][hapmap]
rs1907134	0.81[CHD][hapmap]
rs1907135	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1907137	0.87[CEU][hapmap];0.94[CHB][hapmap];0.94[JPT][hapmap]
rs1948323	1.00[CEU][hapmap]
rs1994217	0.83[JPT][hapmap]
rs2130685	1.00[CEU][hapmap];0.96[TSI][hapmap]
rs2130687	0.81[JPT][hapmap]
rs2172023	1.00[CEU][hapmap];0.96[TSI][hapmap]
rs2247587	0.81[CHD][hapmap]
rs2627798	0.81[CHD][hapmap];0.83[JPT][hapmap]
rs2627801	0.90[CHD][hapmap];0.87[JPT][hapmap]
rs2627813	0.81[CHD][hapmap]
rs2627817	1.00[CEU][hapmap];0.96[TSI][hapmap]
rs2627834	0.80[EUR][1000 genomes]
rs2627835	0.87[CEU][hapmap]
rs2636632	1.00[CEU][hapmap];0.96[TSI][hapmap]
rs2636637	0.81[CEU][hapmap];0.81[JPT][hapmap];0.81[MKK][hapmap];0.89[TSI][hapmap];0.86[AMR][1000 genomes]
rs2636643	1.00[CEU][hapmap];0.84[TSI][hapmap]
rs2636655	1.00[CEU][hapmap];0.80[EUR][1000 genomes]
rs2636656	1.00[CEU][hapmap];0.96[TSI][hapmap];0.80[EUR][1000 genomes]
rs2636657	0.80[EUR][1000 genomes]
rs2636660	1.00[CEU][hapmap];0.88[TSI][hapmap]
rs2636666	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2636679	1.00[CEU][hapmap]
rs2636682	0.82[JPT][hapmap]
rs2636686	0.81[CHD][hapmap]
rs3102438	1.00[CEU][hapmap]
rs3102439	1.00[CEU][hapmap];0.96[TSI][hapmap]
rs3113511	1.00[CEU][hapmap];0.96[TSI][hapmap];0.80[EUR][1000 genomes]
rs3113521	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3113522	0.87[CEU][hapmap];0.87[CHB][hapmap];0.93[JPT][hapmap];0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs336388	0.84[ASN][1000 genomes]
rs336393	0.85[TSI][hapmap]
rs336394	0.81[CEU][hapmap];0.89[TSI][hapmap]
rs336396	0.80[AMR][1000 genomes]
rs336397	0.80[AMR][1000 genomes]
rs336400	0.81[CEU][hapmap];0.80[AMR][1000 genomes]
rs336402	0.81[CEU][hapmap];0.81[JPT][hapmap];0.89[TSI][hapmap];0.80[AMR][1000 genomes]
rs336404	0.80[AMR][1000 genomes]
rs336405	0.81[CEU][hapmap];0.81[JPT][hapmap];0.80[AMR][1000 genomes]
rs336406	0.81[CEU][hapmap];0.81[JPT][hapmap];0.89[TSI][hapmap];0.83[AMR][1000 genomes]
rs336408	0.81[JPT][hapmap];0.84[TSI][hapmap]
rs34648309	0.94[EUR][1000 genomes]
rs7672422	0.80[YRI][hapmap]
rs992257	0.81[CHB][hapmap];0.93[CHD][hapmap];0.96[GIH][hapmap];0.88[JPT][hapmap];0.89[TSI][hapmap];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv498005	chr4:142515689-143502988	Enhancers Weak transcription Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv1027781	chr4:142943485-143306567	Weak transcription Enhancers Active TSS Genic enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv830097	chr4:142949705-143136372	Weak transcription Enhancers Strong transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	nsv830098	chr4:143050143-143234384	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
5	nsv595604	chr4:143077401-143228914	Weak transcription ZNF genes & repeats Enhancers Strong transcription Active TSS Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:52 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:143018800-143109600	Weak transcription	Fetal Muscle Trunk	muscle
2	chr4:143049800-143114400	Weak transcription	Right Ventricle	heart
3	chr4:143051400-143093400	Weak transcription	Left Ventricle	heart
4	chr4:143052400-143111600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
5	chr4:143052600-143094600	Weak transcription	Duodenum Smooth Muscle	Duodenum
6	chr4:143057800-143114400	Weak transcription	Aorta	Aorta
7	chr4:143058000-143181000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
8	chr4:143061800-143102200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
9	chr4:143064200-143093200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
10	chr4:143069800-143112200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
11	chr4:143070400-143134400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
12	chr4:143071000-143117800	Weak transcription	Psoas Muscle	Psoas
13	chr4:143072000-143137000	Weak transcription	Skeletal Muscle Female	skeletal muscle
14	chr4:143076800-143107200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
15	chr4:143076800-143113200	Weak transcription	Pancreas	Pancrea
16	chr4:143078200-143103400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
17	chr4:143079200-143093000	Weak transcription	Osteobl	bone
18	chr4:143079600-143093600	Weak transcription	Fetal Muscle Leg	muscle
19	chr4:143081000-143128200	Weak transcription	NHDF-Ad	bronchial
20	chr4:143081800-143090400	Weak transcription	Muscle Satellite Cultured Cells	--
21	chr4:143081800-143091600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
22	chr4:143082000-143091400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
23	chr4:143082000-143091800	Weak transcription	HSMM	muscle
24	chr4:143082000-143092800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
25	chr4:143082000-143130000	Weak transcription	Sigmoid Colon	Sigmoid Colon
26	chr4:143082400-143095000	Weak transcription	Primary hematopoietic stem cells	blood
27	chr4:143082400-143134800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
28	chr4:143082600-143092800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
29	chr4:143082600-143094200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
30	chr4:143082800-143115800	Weak transcription	Rectal Mucosa Donor 29	rectum
31	chr4:143083000-143091600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
32	chr4:143083200-143091600	Weak transcription	HSMMtube	muscle
33	chr4:143083200-143092400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
34	chr4:143083200-143093800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
35	chr4:143083200-143100000	Weak transcription	Rectal Mucosa Donor 31	rectum
36	chr4:143084600-143090800	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
37	chr4:143084600-143099600	Weak transcription	Fetal Heart	heart
38	chr4:143086800-143096600	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
39	chr4:143088200-143090200	Strong transcription	Primary T cells fromperipheralblood	blood
40	chr4:143088600-143108200	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
41	chr4:143088800-143096200	Weak transcription	Ovary	ovary
42	chr4:143089000-143090200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
43	chr4:143089000-143095200	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
44	chr4:143089000-143096400	Strong transcription	HMEC	breast
45	chr4:143089000-143108400	Strong transcription	Primary T helper cells PMA-I stimulated	--
46	chr4:143089200-143095200	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
47	chr4:143089400-143090000	Strong transcription	Primary T helper memory cells from peripheral blood 1	blood
48	chr4:143089400-143090200	Strong transcription	Primary T cells from cord blood	blood
49	chr4:143089400-143118000	Strong transcription	Primary T helper cells fromperipheralblood	blood
50	chr4:143089600-143092200	Strong transcription	NHEK	skin

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