Variant report

Variant	rs9837158
Chromosome Location	chr3:136073163-136073164
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:136069906..136072188-chr3:136072294..136075006,2	MCF-7	breast:

Extended variants
information (count: 75 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:70)

rs_ID	r²[population]
rs12695645	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12695649	0.86[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[ASN][1000 genomes]
rs13068210	1.00[YRI][hapmap]
rs13071220	1.00[ASN][1000 genomes]
rs13072038	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13081671	0.91[GIH][hapmap]
rs13092193	0.86[CEU][hapmap];1.00[YRI][hapmap];1.00[ASN][1000 genomes]
rs13096466	1.00[ASN][1000 genomes]
rs13316214	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13321721	0.86[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.93[TSI][hapmap];1.00[ASN][1000 genomes]
rs13326151	0.86[CEU][hapmap];0.82[GIH][hapmap];1.00[MEX][hapmap];0.93[TSI][hapmap];1.00[ASN][1000 genomes]
rs1604793	1.00[ASN][1000 genomes]
rs17200216	0.86[CEU][hapmap];0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17298525	0.86[CEU][hapmap];1.00[ASN][1000 genomes]
rs17364492	0.89[ASW][hapmap];0.86[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[ASN][1000 genomes]
rs28535121	0.94[GIH][hapmap]
rs28634226	1.00[ASW][hapmap];0.86[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28641809	1.00[ASN][1000 genomes]
rs28669017	0.94[GIH][hapmap]
rs28718456	1.00[ASN][1000 genomes]
rs28811905	1.00[ASN][1000 genomes]
rs34031772	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34135127	0.86[CEU][hapmap];0.82[GIH][hapmap];1.00[MEX][hapmap];0.93[TSI][hapmap];1.00[ASN][1000 genomes]
rs34168675	0.82[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs34282798	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34324561	0.83[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs34428695	1.00[ASN][1000 genomes]
rs34757183	0.86[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34913797	0.86[CEU][hapmap];1.00[GIH][hapmap];0.92[MEX][hapmap];0.93[TSI][hapmap];0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34969907	1.00[ASN][1000 genomes]
rs35320690	0.94[GIH][hapmap];1.00[YRI][hapmap]
rs35326900	1.00[ASN][1000 genomes]
rs35352346	0.91[GIH][hapmap]
rs35375192	0.81[GIH][hapmap]
rs35522825	1.00[ASN][1000 genomes]
rs35899944	1.00[ASN][1000 genomes]
rs6439629	1.00[YRI][hapmap]
rs66890203	1.00[ASN][1000 genomes]
rs6768743	0.89[ASW][hapmap];0.86[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[ASN][1000 genomes]
rs6769762	0.94[GIH][hapmap]
rs6771002	0.86[CEU][hapmap];1.00[YRI][hapmap];1.00[ASN][1000 genomes]
rs6773949	1.00[ASN][1000 genomes]
rs6774964	1.00[ASN][1000 genomes]
rs6786582	0.94[GIH][hapmap];1.00[YRI][hapmap]
rs67949818	1.00[ASN][1000 genomes]
rs6796523	0.93[EUR][1000 genomes]
rs6806123	1.00[ASN][1000 genomes]
rs7612425	1.00[ASN][1000 genomes]
rs9810051	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9810789	1.00[ASN][1000 genomes]
rs9812579	0.86[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.93[TSI][hapmap];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9813115	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9813691	0.86[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.93[TSI][hapmap];1.00[ASN][1000 genomes]
rs9818056	1.00[ASN][1000 genomes]
rs9818536	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9820621	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9823373	0.86[CEU][hapmap];0.82[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9826454	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9828088	1.00[ASN][1000 genomes]
rs9832813	0.83[GIH][hapmap];0.92[MEX][hapmap];0.83[YRI][hapmap]
rs9841529	0.86[CEU][hapmap];1.00[YRI][hapmap];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9844666	0.86[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.90[TSI][hapmap];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9857966	1.00[ASN][1000 genomes]
rs9866840	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9869630	1.00[ASN][1000 genomes]
rs9870825	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9872178	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9878078	0.86[CEU][hapmap];0.82[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[ASN][1000 genomes]
rs9880211	1.00[ASW][hapmap];0.85[CEU][hapmap];1.00[GIH][hapmap];0.94[LWK][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9883189	1.00[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	nsv869409	chr3:135649101-136164174	Strong transcription Genic enhancers Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
2	nsv948461	chr3:135969755-136349636	Enhancers ZNF genes & repeats Flanking Active TSS Weak transcription Genic enhancers Strong transcription Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
3	nsv877519	chr3:136035737-136279390	Weak transcription Strong transcription ZNF genes & repeats Enhancers Genic enhancers Bivalent/Poised TSS Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region miRNA target site	5 gene(s)	inside rSNPs	diseases
4	nsv877520	chr3:136056861-136310985	Strong transcription Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
5	nsv877521	chr3:136069286-136310985	Weak transcription Strong transcription Enhancers ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:105 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:136042400-136078800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
2	chr3:136043400-136098600	Weak transcription	Fetal Brain Male	brain
3	chr3:136043600-136082000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
4	chr3:136045600-136079200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
5	chr3:136047600-136098000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
6	chr3:136047800-136074800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
7	chr3:136054200-136085400	Weak transcription	Brain Hippocampus Middle	brain
8	chr3:136054600-136074200	Weak transcription	Brain Angular Gyrus	brain
9	chr3:136054600-136172000	Weak transcription	Brain Inferior Temporal Lobe	brain
10	chr3:136054800-136076600	Weak transcription	Brain Substantia Nigra	brain
11	chr3:136055600-136073400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
12	chr3:136055600-136100800	Weak transcription	Spleen	Spleen
13	chr3:136059600-136079000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
14	chr3:136061800-136074200	Weak transcription	Brain Germinal Matrix	brain
15	chr3:136063400-136073800	Weak transcription	Primary hematopoietic stem cells	blood
16	chr3:136063400-136139000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
17	chr3:136063400-136139000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
18	chr3:136063600-136097000	Weak transcription	Colonic Mucosa	Colon
19	chr3:136063600-136105600	Weak transcription	Gastric	stomach
20	chr3:136063600-136110600	Weak transcription	Small Intestine	intestine
21	chr3:136063600-136139200	Weak transcription	Pancreas	Pancrea
22	chr3:136063800-136095200	Weak transcription	Lung	lung
23	chr3:136065400-136097200	Weak transcription	HepG2	liver
24	chr3:136067600-136074600	Weak transcription	Fetal Intestine Large	intestine
25	chr3:136067600-136109000	Weak transcription	HUVEC	blood vessel
26	chr3:136068200-136074800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
27	chr3:136068200-136075200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
28	chr3:136068400-136074400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
29	chr3:136068400-136074800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
30	chr3:136068400-136075000	Weak transcription	Duodenum Mucosa	Duodenum
31	chr3:136068400-136076400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
32	chr3:136068400-136076800	Weak transcription	Primary monocytes fromperipheralblood	blood
33	chr3:136068400-136083800	Weak transcription	Rectal Mucosa Donor 31	rectum
34	chr3:136068400-136085000	Weak transcription	Fetal Kidney	kidney
35	chr3:136068600-136074400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
36	chr3:136068600-136103800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
37	chr3:136068800-136074800	Weak transcription	Primary T helper cells fromperipheralblood	blood
38	chr3:136069200-136079000	Weak transcription	Primary T cells fromperipheralblood	blood
39	chr3:136069400-136075000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
40	chr3:136069400-136083800	Weak transcription	Adipose Nuclei	Adipose
41	chr3:136069400-136121200	Weak transcription	Sigmoid Colon	Sigmoid Colon
42	chr3:136069600-136074800	Weak transcription	Fetal Intestine Small	intestine
43	chr3:136069600-136074800	Weak transcription	Ovary	ovary
44	chr3:136069600-136080400	Weak transcription	Esophagus	oesophagus
45	chr3:136069600-136087000	Weak transcription	Hela-S3	cervix
46	chr3:136069600-136107400	Weak transcription	Brain Cingulate Gyrus	brain
47	chr3:136069600-136138800	Weak transcription	Skeletal Muscle Female	skeletal muscle
48	chr3:136069600-136139400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
49	chr3:136069800-136073600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
50	chr3:136069800-136074200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--

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