Variant report

Variant	rs3176759
Chromosome Location	chr9:100436676-100436677
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:100435262..100437629-chr9:100439424..100443207,3	K562	blood:
2	chr9:100435124..100437467-chr9:100674905..100676458,2	K562	blood:

Extended variants
information (count: 183 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:182)

rs_ID	r²[population]
rs10119687	0.90[CHD][hapmap];0.84[ASN][1000 genomes]
rs10123546	0.82[ASN][1000 genomes]
rs1034098	0.83[ASN][1000 genomes]
rs1034099	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.83[ASN][1000 genomes]
rs1034100	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.82[MEX][hapmap]
rs10512254	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs10983424	0.81[ASN][1000 genomes]
rs10983428	0.81[ASN][1000 genomes]
rs1116208	0.83[ASN][1000 genomes]
rs1126122	0.87[ASN][1000 genomes]
rs12350221	0.81[ASN][1000 genomes]
rs12350946	0.81[ASN][1000 genomes]
rs14066	0.83[ASN][1000 genomes]
rs1411344	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.83[ASN][1000 genomes]
rs1543636	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs16922319	0.82[ASN][1000 genomes]
rs16923041	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs16923112	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[ASN][1000 genomes]
rs16923269	1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs16923677	0.84[ASN][1000 genomes]
rs16923815	0.81[ASN][1000 genomes]
rs1928641	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs1928642	0.86[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs2282066	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.83[ASN][1000 genomes]
rs2282067	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.87[ASN][1000 genomes]
rs2297155	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs2297156	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs2297157	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2297158	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs2297159	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs2297160	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs2297161	0.95[ASN][1000 genomes]
rs2401598	0.87[ASN][1000 genomes]
rs2401635	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs2668794	0.82[JPT][hapmap]
rs2668795	0.82[JPT][hapmap]
rs2668797	0.82[JPT][hapmap]
rs2805783	0.82[JPT][hapmap]
rs2808681	0.82[JPT][hapmap]
rs28376250	0.81[ASN][1000 genomes]
rs28403588	0.87[ASN][1000 genomes]
rs28403589	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.87[ASN][1000 genomes]
rs3176623	1.00[ASN][1000 genomes]
rs3176624	1.00[ASN][1000 genomes]
rs3176626	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[ASN][1000 genomes]
rs3176628	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[ASN][1000 genomes]
rs3176629	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[ASN][1000 genomes]
rs3176634	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.93[ASN][1000 genomes]
rs3176637	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs3176638	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs3176642	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3176644	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs3176645	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3176651	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs3176654	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3176659	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs3176665	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3176668	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[ASN][1000 genomes]
rs3176669	1.00[ASN][1000 genomes]
rs3176670	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs3176673	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3176675	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs3176682	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs3176685	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs3176688	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs3176694	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[ASN][1000 genomes]
rs3176698	1.00[ASN][1000 genomes]
rs3176700	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3176703	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3176708	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs3176714	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs3176720	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs3176721	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3176723	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs3176724	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs3176726	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs3176728	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3176734	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3176735	1.00[ASN][1000 genomes]
rs3176736	1.00[ASN][1000 genomes]
rs3176739	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3176740	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[ASN][1000 genomes]
rs3176744	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[ASN][1000 genomes]
rs3176746	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs3176747	1.00[ASN][1000 genomes]
rs3176751	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs3176752	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3176758	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3750368	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs3750369	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs3750370	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.83[ASN][1000 genomes]
rs3763606	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.87[ASN][1000 genomes]
rs3802472	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.83[ASN][1000 genomes]
rs3802473	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.83[ASN][1000 genomes]
rs3802474	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs3824494	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs3897841	0.82[ASN][1000 genomes]
rs41274252	0.83[ASN][1000 genomes]
rs4480232	0.84[ASN][1000 genomes]
rs55966848	0.87[ASN][1000 genomes]
rs56052819	1.00[ASN][1000 genomes]
rs56060429	0.87[ASN][1000 genomes]
rs56164437	0.82[ASN][1000 genomes]
rs56200116	1.00[ASN][1000 genomes]
rs57188235	0.87[ASN][1000 genomes]
rs57598118	1.00[ASN][1000 genomes]
rs57612395	0.96[AMR][1000 genomes]
rs57940370	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs58146508	0.87[ASN][1000 genomes]
rs58387091	0.83[ASN][1000 genomes]
rs58390229	0.81[ASN][1000 genomes]
rs58637778	0.83[ASN][1000 genomes]
rs58878935	0.87[ASN][1000 genomes]
rs58933803	0.83[ASN][1000 genomes]
rs59205756	1.00[ASN][1000 genomes]
rs59354722	1.00[ASN][1000 genomes]
rs59478543	0.83[ASN][1000 genomes]
rs59662386	0.87[ASN][1000 genomes]
rs59775587	1.00[ASN][1000 genomes]
rs59791764	0.87[ASN][1000 genomes]
rs59992945	0.83[ASN][1000 genomes]
rs60026475	0.87[ASN][1000 genomes]
rs60028882	0.83[ASN][1000 genomes]
rs60055057	0.87[ASN][1000 genomes]
rs60359353	0.87[ASN][1000 genomes]
rs60463150	1.00[ASN][1000 genomes]
rs60596698	0.83[ASN][1000 genomes]
rs60653177	0.83[ASN][1000 genomes]
rs60821994	1.00[ASN][1000 genomes]
rs61047578	0.81[ASN][1000 genomes]
rs61152667	0.83[ASN][1000 genomes]
rs61208411	1.00[ASN][1000 genomes]
rs61221847	0.87[ASN][1000 genomes]
rs61276200	0.87[ASN][1000 genomes]
rs61440789	1.00[ASN][1000 genomes]
rs61445476	0.87[ASN][1000 genomes]
rs6478304	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs7018546	0.87[ASN][1000 genomes]
rs7025403	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.90[MEX][hapmap];0.83[ASN][1000 genomes]
rs7036604	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs7045160	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[ASN][1000 genomes]
rs7049183	0.87[ASN][1000 genomes]
rs7341850	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.87[ASN][1000 genomes]
rs73498324	0.87[ASN][1000 genomes]
rs73498332	0.87[ASN][1000 genomes]
rs73498338	0.87[ASN][1000 genomes]
rs73498347	0.87[ASN][1000 genomes]
rs73498348	0.87[ASN][1000 genomes]
rs73498355	0.87[ASN][1000 genomes]
rs73498358	0.87[ASN][1000 genomes]
rs73498362	0.87[ASN][1000 genomes]
rs73498377	1.00[ASN][1000 genomes]
rs73498380	1.00[ASN][1000 genomes]
rs73498381	1.00[ASN][1000 genomes]
rs73498394	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73500325	1.00[ASN][1000 genomes]
rs73500326	1.00[ASN][1000 genomes]
rs73500328	1.00[ASN][1000 genomes]
rs73500393	1.00[ASN][1000 genomes]
rs73500395	1.00[ASN][1000 genomes]
rs73500396	1.00[ASN][1000 genomes]
rs73500397	1.00[ASN][1000 genomes]
rs73500398	1.00[ASN][1000 genomes]
rs73500400	1.00[ASN][1000 genomes]
rs73502204	1.00[ASN][1000 genomes]
rs73552509	0.83[ASN][1000 genomes]
rs73552512	0.83[ASN][1000 genomes]
rs73552520	0.83[ASN][1000 genomes]
rs73554629	0.83[ASN][1000 genomes]
rs73554631	0.83[ASN][1000 genomes]
rs73554641	0.83[ASN][1000 genomes]
rs73554646	0.83[ASN][1000 genomes]
rs73554652	0.83[ASN][1000 genomes]
rs7850986	0.98[ASN][1000 genomes]
rs7856316	0.83[ASN][1000 genomes]
rs7859684	0.83[ASN][1000 genomes]
rs7862356	1.00[ASN][1000 genomes]
rs7866961	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs7867046	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs7869683	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs953198	0.82[JPT][hapmap]
rs9539	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv893610	chr9:100324086-100496160	Active TSS Strong transcription Enhancers ZNF genes & repeats Weak transcription Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs3176759	TMOD1	cis	lymphoblastoid	seeQTL
rs3176759	TSTD2	cis	lymphoblastoid	seeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:100400800-100451600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
2	chr9:100401200-100456000	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
3	chr9:100402400-100439600	Strong transcription	HUES64 Cell Line	embryonic stem cell
4	chr9:100402400-100451400	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr9:100402400-100455600	Strong transcription	Dnd41	blood
6	chr9:100402600-100456000	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
7	chr9:100402600-100456200	Strong transcription	Primary B cells from peripheral blood	blood
8	chr9:100402800-100454200	Strong transcription	Fetal Thymus	thymus
9	chr9:100402800-100456000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr9:100403000-100439400	Strong transcription	HUES48 Cell Line	embryonic stem cell
11	chr9:100403000-100439800	Strong transcription	HUES6 Cell Line	embryonic stem cell
12	chr9:100403000-100449400	Strong transcription	HSMM	muscle
13	chr9:100403000-100450400	Strong transcription	Duodenum Mucosa	Duodenum
14	chr9:100403000-100454400	Strong transcription	Placenta	Placenta
15	chr9:100403000-100454600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
16	chr9:100403200-100454400	Strong transcription	Rectal Mucosa Donor 31	rectum
17	chr9:100403200-100455000	Strong transcription	Primary T cells fromperipheralblood	blood
18	chr9:100403400-100439600	Strong transcription	iPS-20b Cell Line	embryonic stem cell
19	chr9:100403400-100444200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
20	chr9:100403600-100453800	Strong transcription	Rectal Mucosa Donor 29	rectum
21	chr9:100403800-100439000	Strong transcription	iPS-18 Cell Line	embryonic stem cell
22	chr9:100404000-100449200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
23	chr9:100404800-100455400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
24	chr9:100405000-100437800	Strong transcription	GM12878-XiMat	blood
25	chr9:100405800-100438600	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
26	chr9:100409400-100439800	Strong transcription	HMEC	breast
27	chr9:100409600-100440000	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
28	chr9:100410200-100437800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
29	chr9:100410200-100454000	Strong transcription	Fetal Muscle Trunk	muscle
30	chr9:100411200-100451000	Strong transcription	Liver	Liver
31	chr9:100412400-100438200	Strong transcription	Fetal Muscle Leg	muscle
32	chr9:100412400-100438400	Strong transcription	Colon Smooth Muscle	Colon
33	chr9:100412400-100439000	Strong transcription	H1 Cell Line	embryonic stem cell
34	chr9:100412600-100439000	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
35	chr9:100412600-100454200	Strong transcription	Duodenum Smooth Muscle	Duodenum
36	chr9:100413000-100451800	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
37	chr9:100413400-100437800	Strong transcription	Stomach Smooth Muscle	stomach
38	chr9:100413400-100438600	Strong transcription	Primary T cells from cord blood	blood
39	chr9:100414000-100438400	Strong transcription	Sigmoid Colon	Sigmoid Colon
40	chr9:100414200-100438600	Strong transcription	Brain Hippocampus Middle	brain
41	chr9:100414400-100438400	Strong transcription	Thymus	Thymus
42	chr9:100414400-100448400	Strong transcription	HUVEC	blood vessel
43	chr9:100414600-100438200	Strong transcription	HSMMtube	muscle
44	chr9:100414800-100438400	Strong transcription	Left Ventricle	heart
45	chr9:100414800-100439000	Strong transcription	Osteobl	bone
46	chr9:100416200-100438600	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
47	chr9:100416400-100439600	Strong transcription	NH-A	brain
48	chr9:100416400-100440200	Strong transcription	Primary hematopoietic stem cells	blood
49	chr9:100416400-100448200	Strong transcription	NHDF-Ad	bronchial
50	chr9:100416400-100451200	Strong transcription	Hela-S3	cervix

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