Variant report

Variant	rs9482858
Chromosome Location	chr6:128351143-128351144
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 74 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:71)

rs_ID	r²[population]
rs10046118	0.94[CEU][hapmap];0.86[AMR][1000 genomes]
rs10046119	0.94[CEU][hapmap];1.00[TSI][hapmap];0.86[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs11962156	0.88[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs12661501	1.00[GIH][hapmap]
rs13217988	0.86[AMR][1000 genomes]
rs17055223	0.94[CEU][hapmap];0.83[LWK][hapmap];0.82[MEX][hapmap];1.00[TSI][hapmap];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs17055227	0.82[AFR][1000 genomes]
rs17055231	1.00[CEU][hapmap];0.94[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1883810	1.00[CEU][hapmap];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2326672	0.82[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs35335036	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4265047	0.88[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs4327718	0.85[AMR][1000 genomes]
rs4336462	0.85[AMR][1000 genomes]
rs4339480	0.88[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs4345415	0.88[EUR][1000 genomes]
rs4421216	0.88[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs4475344	0.94[CEU][hapmap];1.00[TSI][hapmap];0.82[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs4498384	0.88[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs4598101	0.94[CEU][hapmap];0.89[EUR][1000 genomes]
rs4895829	0.94[CEU][hapmap];1.00[GIH][hapmap];0.95[TSI][hapmap];0.91[EUR][1000 genomes]
rs4897239	0.94[CEU][hapmap];0.91[EUR][1000 genomes]
rs4897240	0.94[CEU][hapmap];0.91[EUR][1000 genomes]
rs4897241	0.83[CEU][hapmap];0.90[TSI][hapmap];0.80[EUR][1000 genomes]
rs4897242	0.94[CEU][hapmap];1.00[GIH][hapmap];0.95[TSI][hapmap];0.82[EUR][1000 genomes]
rs4897243	0.94[CEU][hapmap];1.00[GIH][hapmap];0.95[TSI][hapmap];0.91[EUR][1000 genomes]
rs6569520	1.00[CEU][hapmap];0.91[LWK][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6569521	0.94[CEU][hapmap];0.90[EUR][1000 genomes]
rs6569522	0.94[CEU][hapmap];0.90[EUR][1000 genomes]
rs6569523	0.94[CEU][hapmap];0.89[TSI][hapmap];0.89[EUR][1000 genomes]
rs6912749	0.85[CEU][hapmap]
rs6913095	0.89[CEU][hapmap];0.88[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs6913595	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6928445	0.94[CEU][hapmap];0.88[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs6928496	0.94[CEU][hapmap];0.88[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs6928512	0.94[CEU][hapmap];0.88[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs6938574	0.94[CEU][hapmap];0.89[EUR][1000 genomes]
rs73582674	0.80[AFR][1000 genomes]
rs73582688	0.80[AFR][1000 genomes]
rs7756639	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7757761	0.94[CEU][hapmap];1.00[GIH][hapmap];0.89[TSI][hapmap];0.84[AMR][1000 genomes]
rs7758689	0.84[AMR][1000 genomes]
rs7769691	0.94[CEU][hapmap];0.90[EUR][1000 genomes]
rs7774703	0.94[CEU][hapmap];0.89[EUR][1000 genomes]
rs9321106	0.94[CEU][hapmap];0.86[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs9321107	0.94[CEU][hapmap];0.88[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs9321108	0.94[CEU][hapmap];0.94[EUR][1000 genomes]
rs9321109	0.94[CEU][hapmap];0.94[EUR][1000 genomes]
rs9375546	0.94[CEU][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];0.80[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9388616	0.82[AMR][1000 genomes]
rs9402016	0.81[EUR][1000 genomes]
rs9482856	0.82[AMR][1000 genomes]
rs9482857	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9482859	0.94[CEU][hapmap];1.00[TSI][hapmap];0.86[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs9482860	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.80[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9482861	0.94[CEU][hapmap];0.88[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs9482862	0.94[CEU][hapmap];0.88[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs9482863	1.00[CEU][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9482864	0.94[CEU][hapmap];0.88[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs9482865	0.94[CEU][hapmap];0.88[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs9482866	0.94[CEU][hapmap];0.88[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs9482867	0.88[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs9482868	0.94[CEU][hapmap];1.00[TSI][hapmap];0.88[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs9482869	0.82[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs9482871	0.94[CEU][hapmap];0.91[EUR][1000 genomes]
rs9482872	0.94[CEU][hapmap];0.81[EUR][1000 genomes]
rs9491904	0.94[CEU][hapmap];0.86[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs9491905	0.86[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs9491906	0.94[CEU][hapmap];0.82[AMR][1000 genomes]
rs970363	0.94[CEU][hapmap];0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs970364	1.00[CEU][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][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	nsv604642	chr6:128278798-128351143	Strong transcription Genic enhancers Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA target site	2 gene(s)	inside rSNPs	diseases
2	nsv1033443	chr6:128306654-128899203	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
3	nsv538440	chr6:128306654-128899203	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:54 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:128289000-128431000	Weak transcription	Psoas Muscle	Psoas
2	chr6:128293600-128374400	Weak transcription	Pancreas	Pancrea
3	chr6:128298000-128352600	Weak transcription	Rectal Smooth Muscle	rectum
4	chr6:128305200-128353000	Weak transcription	Left Ventricle	heart
5	chr6:128307800-128370800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
6	chr6:128311600-128387200	Weak transcription	NH-A	brain
7	chr6:128311800-128378400	Weak transcription	Rectal Mucosa Donor 31	rectum
8	chr6:128314000-128367400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
9	chr6:128320800-128357800	Weak transcription	Fetal Intestine Small	intestine
10	chr6:128320800-128388200	Weak transcription	NHEK	skin
11	chr6:128326600-128356600	Weak transcription	HSMM	muscle
12	chr6:128326600-128388200	Weak transcription	HMEC	breast
13	chr6:128329200-128353000	Weak transcription	HepG2	liver
14	chr6:128330200-128353000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
15	chr6:128337400-128378400	Weak transcription	Sigmoid Colon	Sigmoid Colon
16	chr6:128341200-128353200	Weak transcription	Fetal Heart	heart
17	chr6:128341200-128374400	Weak transcription	HSMMtube	muscle
18	chr6:128341400-128351200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
19	chr6:128342200-128371000	Weak transcription	Liver	Liver
20	chr6:128342600-128388600	Weak transcription	Fetal Brain Female	brain
21	chr6:128343600-128353000	Weak transcription	Rectal Mucosa Donor 29	rectum
22	chr6:128344200-128352800	Weak transcription	Fetal Intestine Large	intestine
23	chr6:128344600-128369200	Weak transcription	Ovary	ovary
24	chr6:128345000-128353000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
25	chr6:128345800-128352400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
26	chr6:128346800-128353000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
27	chr6:128346800-128353000	Weak transcription	Aorta	Aorta
28	chr6:128347000-128353200	Weak transcription	H1 Cell Line	embryonic stem cell
29	chr6:128347000-128374400	Weak transcription	Esophagus	oesophagus
30	chr6:128347000-128405200	Weak transcription	Lung	lung
31	chr6:128347600-128353000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
32	chr6:128348400-128353200	Weak transcription	Primary T helper cells PMA-I stimulated	--
33	chr6:128348600-128353000	Weak transcription	Duodenum Mucosa	Duodenum
34	chr6:128348800-128353200	Weak transcription	Primary T helper cells fromperipheralblood	blood
35	chr6:128349400-128352800	Weak transcription	Osteobl	bone
36	chr6:128349800-128352200	Weak transcription	Primary T cells from cord blood	blood
37	chr6:128350000-128370000	Weak transcription	Placenta	Placenta
38	chr6:128350000-128401000	Weak transcription	Small Intestine	intestine
39	chr6:128350200-128353000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
40	chr6:128350200-128355200	Enhancers	Fetal Thymus	thymus
41	chr6:128350400-128374200	Weak transcription	Gastric	stomach
42	chr6:128350600-128352600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
43	chr6:128350600-128352800	Weak transcription	HUVEC	blood vessel
44	chr6:128350600-128374200	Weak transcription	Fetal Stomach	stomach
45	chr6:128350800-128351800	Strong transcription	Primary B cells from cord blood	blood
46	chr6:128350800-128360200	Weak transcription	Primary B cells from peripheral blood	blood
47	chr6:128351000-128351400	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
48	chr6:128351000-128351400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
49	chr6:128351000-128351400	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
50	chr6:128351000-128351600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin

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