Variant report

Variant	rs963425
Chromosome Location	chr15:35227613-35227614
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 104 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:95)

rs_ID	r²[population]
rs10152246	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10519967	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[MEX][hapmap];0.81[YRI][hapmap];0.82[AFR][1000 genomes];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11073076	0.91[CEU][hapmap];0.87[CHB][hapmap];0.85[AMR][1000 genomes]
rs11629721	0.82[ASN][1000 genomes]
rs11633307	0.93[ASN][1000 genomes]
rs11635485	0.95[CEU][hapmap];0.94[CHB][hapmap];0.85[JPT][hapmap];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11636350	1.00[CEU][hapmap];0.95[CHB][hapmap];0.85[JPT][hapmap];0.83[AFR][1000 genomes];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11852957	0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11855784	0.95[CHB][hapmap];0.90[JPT][hapmap];0.91[ASN][1000 genomes]
rs11857217	0.91[CHB][hapmap];0.90[JPT][hapmap];0.88[ASN][1000 genomes]
rs11858044	0.93[ASN][1000 genomes]
rs12439825	0.91[CEU][hapmap];0.91[CHB][hapmap];0.83[JPT][hapmap];0.87[MEX][hapmap]
rs12442905	0.86[CHB][hapmap]
rs12593379	0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12593603	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12593818	0.93[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[MEX][hapmap];0.88[YRI][hapmap];0.96[AFR][1000 genomes];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12595318	0.93[ASN][1000 genomes]
rs12708534	0.80[ASN][1000 genomes]
rs12898639	0.97[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12899377	0.95[CHB][hapmap];0.89[JPT][hapmap];0.93[ASN][1000 genomes]
rs12901028	0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12901394	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12901457	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12901466	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12901794	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs12901991	0.95[CHB][hapmap];0.90[JPT][hapmap];0.93[ASN][1000 genomes]
rs12902633	0.87[ASN][1000 genomes]
rs12904279	0.87[ASN][1000 genomes]
rs12915053	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs12915493	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[MEX][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12917386	0.95[CHB][hapmap];0.90[JPT][hapmap];0.96[ASN][1000 genomes]
rs12917597	0.91[ASN][1000 genomes]
rs1376784	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[MEX][hapmap];0.81[YRI][hapmap];0.81[AFR][1000 genomes];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs16959966	0.86[CHB][hapmap]
rs2044920	0.92[ASN][1000 genomes]
rs2060809	0.91[CEU][hapmap];0.86[CHB][hapmap]
rs2060810	0.85[CHB][hapmap];0.88[MEX][hapmap];0.80[YRI][hapmap];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2060811	0.87[CHB][hapmap]
rs2060812	0.94[CEU][hapmap];0.88[CHB][hapmap];0.83[JPT][hapmap];0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2123048	0.93[ASN][1000 genomes]
rs2290320	0.86[CHB][hapmap];0.90[JPT][hapmap];0.93[ASN][1000 genomes]
rs2305411	0.95[CEU][hapmap];0.91[CHB][hapmap];0.85[JPT][hapmap];0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2339746	0.93[ASN][1000 genomes]
rs28498500	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs28715915	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs36067547	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs3743121	0.86[CHB][hapmap];0.84[JPT][hapmap];0.82[ASN][1000 genomes]
rs3816447	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[MEX][hapmap];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3848167	0.95[CHB][hapmap];0.90[JPT][hapmap];0.91[ASN][1000 genomes]
rs4513050	0.86[CHB][hapmap]
rs4569214	0.95[CHB][hapmap];0.89[JPT][hapmap]
rs4923817	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.82[AFR][1000 genomes];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4923818	0.92[AFR][1000 genomes];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4923845	1.00[CEU][hapmap];0.91[CHB][hapmap];0.85[JPT][hapmap];0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4924324	0.91[ASN][1000 genomes]
rs4924325	0.95[CHB][hapmap];0.90[JPT][hapmap];0.91[ASN][1000 genomes]
rs4924339	0.82[CHB][hapmap];1.00[JPT][hapmap];0.84[MEX][hapmap];0.82[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs4924344	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[MEX][hapmap];0.81[YRI][hapmap];0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4924355	0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4924357	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4924369	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[MKK][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6495723	0.93[ASN][1000 genomes]
rs6495724	0.95[CHB][hapmap];0.89[JPT][hapmap];0.93[ASN][1000 genomes]
rs6495726	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6495728	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6495729	0.95[CEU][hapmap];0.91[CHB][hapmap];0.85[JPT][hapmap];0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6495730	0.91[CEU][hapmap];0.87[CHB][hapmap]
rs7164151	0.91[CEU][hapmap];0.91[CHB][hapmap];0.87[MEX][hapmap]
rs7164169	0.91[CEU][hapmap];0.86[CHB][hapmap]
rs7164266	0.91[CEU][hapmap];0.86[CHB][hapmap]
rs7164977	0.95[CHB][hapmap];0.90[JPT][hapmap];0.93[ASN][1000 genomes]
rs7165835	0.81[AFR][1000 genomes];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7167892	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7170280	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7170737	0.94[ASN][1000 genomes]
rs7171808	0.89[ASN][1000 genomes]
rs7172507	0.90[EUR][1000 genomes]
rs7177962	0.95[CHB][hapmap];0.90[JPT][hapmap];0.96[ASN][1000 genomes]
rs7179833	0.86[CHB][hapmap]
rs7182356	0.86[CHB][hapmap]
rs7182492	0.93[ASN][1000 genomes]
rs7497306	0.82[AFR][1000 genomes];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs8024212	0.94[AMR][1000 genomes];0.80[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs8025770	0.95[CHB][hapmap];0.89[JPT][hapmap];0.93[ASN][1000 genomes]
rs8029192	0.93[AMR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs8031583	0.93[ASN][1000 genomes]
rs8031677	0.93[ASN][1000 genomes]
rs8031861	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs8036690	0.93[ASN][1000 genomes]
rs8037610	0.91[CEU][hapmap];0.87[CHB][hapmap]
rs8040551	0.91[CHB][hapmap];0.84[JPT][hapmap];0.88[ASN][1000 genomes]
rs959478	0.95[CHB][hapmap];0.89[JPT][hapmap];0.93[ASN][1000 genomes]
rs9672656	0.87[ASN][1000 genomes]
rs9806487	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9920918	0.93[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3350109	chr15:34668106-35534229	Strong transcription Flanking Active TSS Enhancers Bivalent/Poised TSS Active TSS Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	64 gene(s)	inside rSNPs	diseases
2	nsv522411	chr15:34953986-35462981	Enhancers Strong transcription Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers 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	43 gene(s)	inside rSNPs	diseases
3	nsv457106	chr15:35049787-35227613	Strong transcription Weak transcription Enhancers Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
4	nsv569153	chr15:35049787-35227613	Active TSS Strong transcription Enhancers Flanking Bivalent TSS/Enh Weak transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
5	esv2761865	chr15:35101678-35271639	Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
6	nsv832967	chr15:35110102-35267906	Strong transcription Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Genic enhancers Enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
7	nsv904071	chr15:35150897-35250771	Weak transcription Strong transcription ZNF genes & repeats Enhancers Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
8	nsv904072	chr15:35150897-35259376	Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
9	nsv569154	chr15:35165366-35259376	Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:35186000-35232000	Weak transcription	Fetal Brain Male	brain
2	chr15:35186400-35238800	Strong transcription	Primary T helper cells fromperipheralblood	blood
3	chr15:35197600-35238800	Strong transcription	Primary neutrophils fromperipheralblood	blood
4	chr15:35198800-35261200	Weak transcription	Esophagus	oesophagus
5	chr15:35207000-35234600	Weak transcription	Stomach Mucosa	stomach
6	chr15:35207000-35259400	Weak transcription	Small Intestine	intestine
7	chr15:35207400-35239800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
8	chr15:35209800-35232200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
9	chr15:35211000-35231800	Weak transcription	Brain Angular Gyrus	brain
10	chr15:35213800-35235400	Strong transcription	Liver	Liver
11	chr15:35213800-35238800	Strong transcription	Placenta	Placenta
12	chr15:35213800-35238800	Strong transcription	Monocytes-CD14+_RO01746	blood
13	chr15:35214000-35238200	Strong transcription	Primary monocytes fromperipheralblood	blood
14	chr15:35214200-35237600	Strong transcription	HUES6 Cell Line	embryonic stem cell
15	chr15:35214200-35238000	Strong transcription	iPS-20b Cell Line	embryonic stem cell
16	chr15:35214200-35238200	Strong transcription	HUES64 Cell Line	embryonic stem cell
17	chr15:35215600-35227800	Strong transcription	iPS-18 Cell Line	embryonic stem cell
18	chr15:35215800-35238800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
19	chr15:35216200-35228200	Strong transcription	Duodenum Smooth Muscle	Duodenum
20	chr15:35216800-35236600	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
21	chr15:35217000-35228600	Strong transcription	HSMM	muscle
22	chr15:35217000-35237000	Strong transcription	Primary T helper cells PMA-I stimulated	--
23	chr15:35217000-35238600	Strong transcription	Primary T cells fromperipheralblood	blood
24	chr15:35217200-35234600	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
25	chr15:35217200-35238200	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
26	chr15:35217400-35233200	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
27	chr15:35217400-35237000	Strong transcription	Rectal Mucosa Donor 29	rectum
28	chr15:35217400-35238200	Strong transcription	Primary B cells from peripheral blood	blood
29	chr15:35217400-35238400	Strong transcription	HUES48 Cell Line	embryonic stem cell
30	chr15:35217400-35238400	Strong transcription	Adipose Nuclei	Adipose
31	chr15:35217600-35233000	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
32	chr15:35218000-35238200	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
33	chr15:35218400-35234800	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
34	chr15:35218600-35238400	Strong transcription	Duodenum Mucosa	Duodenum
35	chr15:35218600-35238400	Strong transcription	Rectal Mucosa Donor 31	rectum
36	chr15:35219600-35228600	Strong transcription	Primary hematopoietic stem cells	blood
37	chr15:35219600-35235000	Strong transcription	Skeletal Muscle Female	skeletal muscle
38	chr15:35219600-35238200	Strong transcription	Fetal Intestine Large	intestine
39	chr15:35220000-35238800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
40	chr15:35220200-35233200	Strong transcription	A549	lung
41	chr15:35220200-35234200	Weak transcription	Brain Substantia Nigra	brain
42	chr15:35220600-35260200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
43	chr15:35220800-35239800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
44	chr15:35220800-35251400	Weak transcription	Aorta	Aorta
45	chr15:35221000-35238400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
46	chr15:35221200-35238600	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
47	chr15:35221200-35260800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
48	chr15:35221800-35228000	Strong transcription	Skeletal Muscle Male	skeletal muscle
49	chr15:35221800-35236800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
50	chr15:35222000-35234200	Weak transcription	Pancreatic Islets	Pancreatic Islet

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