Variant report

Variant	rs9841529
Chromosome Location	chr3:136137283-136137284
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 81 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs12695645	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12695649	1.00[CEU][hapmap];1.00[ASN][1000 genomes]
rs13066401	1.00[ASN][1000 genomes]
rs13068210	0.81[AFR][1000 genomes]
rs13071220	1.00[CEU][hapmap];1.00[ASN][1000 genomes]
rs13072038	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13092193	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[ASN][1000 genomes]
rs13096466	1.00[ASN][1000 genomes]
rs13316214	0.81[AFR][1000 genomes];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13321721	1.00[CEU][hapmap];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13326151	1.00[CEU][hapmap];1.00[ASN][1000 genomes]
rs13434116	1.00[ASN][1000 genomes]
rs1604793	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17200216	1.00[CEU][hapmap];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs17298525	1.00[CEU][hapmap];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17364492	1.00[CEU][hapmap];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28390205	1.00[ASN][1000 genomes]
rs28634226	1.00[CEU][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28641809	1.00[ASN][1000 genomes]
rs28718456	0.89[AFR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28750366	1.00[ASN][1000 genomes]
rs28811905	1.00[ASN][1000 genomes]
rs34031772	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34135127	1.00[CEU][hapmap];1.00[ASN][1000 genomes]
rs34168675	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34282798	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34324561	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs34428695	1.00[ASN][1000 genomes]
rs34757183	1.00[CEU][hapmap];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34804893	1.00[ASN][1000 genomes]
rs34913797	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34969907	1.00[ASN][1000 genomes]
rs35326900	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35522825	1.00[ASN][1000 genomes]
rs35899944	1.00[ASN][1000 genomes]
rs4038586	1.00[ASN][1000 genomes]
rs66890203	1.00[ASN][1000 genomes]
rs67145204	1.00[ASN][1000 genomes]
rs6767889	1.00[ASN][1000 genomes]
rs6768743	1.00[CEU][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6771002	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[ASN][1000 genomes]
rs6773949	1.00[ASN][1000 genomes]
rs6774964	1.00[ASN][1000 genomes]
rs67949818	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6796523	0.86[EUR][1000 genomes]
rs6806123	1.00[CEU][hapmap];1.00[ASN][1000 genomes]
rs71336069	1.00[ASN][1000 genomes]
rs7612425	1.00[ASN][1000 genomes]
rs9810051	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9810789	1.00[ASN][1000 genomes]
rs9812579	1.00[CEU][hapmap];0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9813115	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9813691	1.00[CEU][hapmap];1.00[ASN][1000 genomes]
rs9818056	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9818536	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9820621	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9820717	1.00[ASN][1000 genomes]
rs9823373	1.00[CEU][hapmap];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9826454	1.00[ASN][1000 genomes]
rs9828088	1.00[ASN][1000 genomes]
rs9837158	0.86[CEU][hapmap];1.00[YRI][hapmap];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9844666	1.00[CEU][hapmap];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9847427	1.00[ASN][1000 genomes]
rs9857966	1.00[CEU][hapmap];1.00[ASN][1000 genomes]
rs9866840	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9869630	1.00[ASN][1000 genomes]
rs9870825	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9872178	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9878078	1.00[CEU][hapmap];1.00[ASN][1000 genomes]
rs9880211	1.00[CEU][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9883189	1.00[CEU][hapmap];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 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
6	nsv877522	chr3:136088038-136241028	ZNF genes & repeats Strong transcription Weak transcription Enhancers Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
7	nsv877523	chr3:136088038-136310985	Weak transcription ZNF genes & repeats Strong transcription Enhancers Genic enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
8	nsv520012	chr3:136088038-136314119	Strong transcription Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Genic enhancers Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
9	nsv877524	chr3:136112109-136295283	Enhancers Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Bivalent/Poised TSS Active TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
10	nsv877525	chr3:136112109-136310985	Weak transcription ZNF genes & repeats Strong transcription Enhancers Active TSS Genic enhancers Flanking Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:107 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:136054600-136172000	Weak transcription	Brain Inferior Temporal Lobe	brain
2	chr3:136063400-136139000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
3	chr3:136063400-136139000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
4	chr3:136063600-136139200	Weak transcription	Pancreas	Pancrea
5	chr3:136069600-136138800	Weak transcription	Skeletal Muscle Female	skeletal muscle
6	chr3:136069600-136139400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
7	chr3:136069800-136159600	Weak transcription	Placenta Amnion	Placenta Amnion
8	chr3:136075000-136137800	Weak transcription	Duodenum Smooth Muscle	Duodenum
9	chr3:136075800-136160200	Weak transcription	Brain Germinal Matrix	brain
10	chr3:136079400-136174200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
11	chr3:136085800-136139200	Weak transcription	Rectal Mucosa Donor 31	rectum
12	chr3:136085800-136174800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
13	chr3:136086200-136174800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
14	chr3:136095600-136137800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
15	chr3:136095800-136139200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
16	chr3:136096000-136138200	Weak transcription	Lung	lung
17	chr3:136104800-136139400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
18	chr3:136106000-136139200	Weak transcription	Colon Smooth Muscle	Colon
19	chr3:136110000-136139000	Weak transcription	Ovary	ovary
20	chr3:136110800-136174200	Weak transcription	Esophagus	oesophagus
21	chr3:136111000-136137800	Weak transcription	HUES64 Cell Line	embryonic stem cell
22	chr3:136112200-136174200	Weak transcription	Osteobl	bone
23	chr3:136113000-136174200	Weak transcription	Aorta	Aorta
24	chr3:136114400-136139800	Weak transcription	NHDF-Ad	bronchial
25	chr3:136114800-136160400	Weak transcription	Fetal Kidney	kidney
26	chr3:136115400-136174200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
27	chr3:136116200-136173400	Weak transcription	Muscle Satellite Cultured Cells	--
28	chr3:136116600-136174400	Weak transcription	Hela-S3	cervix
29	chr3:136116800-136139200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
30	chr3:136117400-136139200	Weak transcription	Rectal Smooth Muscle	rectum
31	chr3:136118200-136170400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
32	chr3:136118800-136139200	Weak transcription	NHLF	lung
33	chr3:136119600-136139200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
34	chr3:136122000-136139200	Weak transcription	Sigmoid Colon	Sigmoid Colon
35	chr3:136123000-136157000	Weak transcription	Colonic Mucosa	Colon
36	chr3:136123400-136139200	Weak transcription	HUVEC	blood vessel
37	chr3:136124000-136141600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
38	chr3:136124400-136139200	Weak transcription	Right Ventricle	heart
39	chr3:136124600-136174000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
40	chr3:136125600-136139200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
41	chr3:136127400-136140000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
42	chr3:136128200-136139200	Weak transcription	Gastric	stomach
43	chr3:136128200-136139400	Weak transcription	Small Intestine	intestine
44	chr3:136129200-136137600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
45	chr3:136129400-136139400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
46	chr3:136129800-136141400	Weak transcription	Brain Substantia Nigra	brain
47	chr3:136129800-136174200	Weak transcription	HSMMtube	muscle
48	chr3:136131000-136139200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
49	chr3:136131000-136160200	Weak transcription	HUES48 Cell Line	embryonic stem cell
50	chr3:136131400-136160400	Weak transcription	iPS-18 Cell Line	embryonic stem cell

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