Variant report

Variant	rs3176642
Chromosome Location	chr9:100457734-100457735
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:2)
CpG islands
(count:0)
Chromatin interactive
region (count:7)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:2 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	MXI1	chr9:100457686-100460675	SK-N-SH	brain:	n/a	n/a
2	POLR2A	chr9:100457700-100457971	HepG2	liver:	n/a	n/a

No data

(count:7 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr9:100457693..100459222-chr9:100744821..100747461,2	K562	blood:
2	chr9:100455758..100458745-chr9:100534997..100536831,2	K562	blood:
3	chr9:100393858..100397326-chr9:100457081..100460285,5	MCF-7	breast:
4	chr9:100392082..100395139-chr9:100455935..100459131,3	K562	blood:
5	chr9:100456538..100459527-chr9:100606763..100609012,2	K562	blood:
6	chr9:100456373..100458750-chr9:100743910..100746135,2	K562	blood:
7	chr9:100411786..100413328-chr9:100457588..100459137,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000266608	TF binding region
KRT18P13	TF binding region
ENSG00000136938	Chromatin interaction
ENSG00000136925	Chromatin interaction
ENSG00000136937	Chromatin interaction

Extended variants
information (count: 183 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10119687	0.84[ASN][1000 genomes]
rs10123546	0.82[ASN][1000 genomes]
rs1034098	0.83[ASN][1000 genomes]
rs1034099	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs1034100	1.00[CHB][hapmap];1.00[JPT][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[JPT][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[JPT][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[JPT][hapmap];0.83[ASN][1000 genomes]
rs2282067	1.00[CHB][hapmap];1.00[JPT][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[JPT][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[JPT][hapmap];1.00[ASN][1000 genomes]
rs3176628	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs3176629	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs3176634	1.00[CHB][hapmap];1.00[JPT][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]
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[JPT][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[JPT][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[JPT][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[JPT][hapmap];1.00[ASN][1000 genomes]
rs3176744	1.00[CHB][hapmap];1.00[JPT][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[JPT][hapmap];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3176758	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3176759	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[JPT][hapmap];0.83[ASN][1000 genomes]
rs3763606	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs3802472	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs3802473	1.00[CHB][hapmap];1.00[JPT][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[JPT][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[JPT][hapmap];1.00[ASN][1000 genomes]
rs7049183	0.87[ASN][1000 genomes]
rs7341850	1.00[CHB][hapmap];1.00[JPT][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

No data

Chromatin state (count:114 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:100437600-100458400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr9:100438000-100458400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr9:100438600-100457800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
4	chr9:100439000-100458800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
5	chr9:100446800-100457800	Weak transcription	Aorta	Aorta
6	chr9:100447000-100457800	Weak transcription	HUES6 Cell Line	embryonic stem cell
7	chr9:100447200-100458400	Weak transcription	Colonic Mucosa	Colon
8	chr9:100451200-100458400	Weak transcription	Esophagus	oesophagus
9	chr9:100451600-100458000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
10	chr9:100452000-100457800	Weak transcription	Stomach Mucosa	stomach
11	chr9:100452600-100457800	Weak transcription	Pancreas	Pancrea
12	chr9:100453800-100457800	Weak transcription	Placenta Amnion	Placenta Amnion
13	chr9:100453800-100457800	Weak transcription	Rectal Mucosa Donor 29	rectum
14	chr9:100453800-100457800	Weak transcription	NH-A	brain
15	chr9:100453800-100458400	Weak transcription	Left Ventricle	heart
16	chr9:100454000-100457800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
17	chr9:100454000-100457800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
18	chr9:100454000-100458200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
19	chr9:100454000-100458200	Weak transcription	Fetal Muscle Trunk	muscle
20	chr9:100454000-100458400	Weak transcription	Primary neutrophils fromperipheralblood	blood
21	chr9:100454000-100458400	Weak transcription	Thymus	Thymus
22	chr9:100454200-100457800	Weak transcription	Fetal Thymus	thymus
23	chr9:100454400-100457800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
24	chr9:100454400-100457800	Weak transcription	Fetal Muscle Leg	muscle
25	chr9:100454400-100458200	Weak transcription	Placenta	Placenta
26	chr9:100454400-100458800	Weak transcription	Lung	lung
27	chr9:100454400-100459000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
28	chr9:100454600-100457800	Weak transcription	Spleen	Spleen
29	chr9:100455000-100457800	Weak transcription	Primary T cells fromperipheralblood	blood
30	chr9:100455400-100457800	Enhancers	Brain Substantia Nigra	brain
31	chr9:100455400-100458200	Enhancers	Liver	Liver
32	chr9:100455600-100458400	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
33	chr9:100455800-100457800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
34	chr9:100455800-100458000	Weak transcription	Primary hematopoietic stem cells	blood
35	chr9:100455800-100458000	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
36	chr9:100456000-100457800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
37	chr9:100456000-100457800	Enhancers	Skeletal Muscle Female	skeletal muscle
38	chr9:100456000-100458000	Enhancers	Primary T helper cells fromperipheralblood	blood
39	chr9:100456000-100458200	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
40	chr9:100456000-100458200	Enhancers	Primary T killer memory cells from peripheral blood	blood
41	chr9:100456400-100457800	Enhancers	Fetal Brain Male	brain
42	chr9:100456400-100458000	Enhancers	Fetal Heart	heart
43	chr9:100456400-100458000	Enhancers	Osteobl	bone
44	chr9:100456400-100458400	Enhancers	Right Ventricle	heart
45	chr9:100456400-100458600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
46	chr9:100456400-100458800	Flanking Active TSS	HUVEC	blood vessel
47	chr9:100456400-100459000	Flanking Active TSS	Dnd41	blood
48	chr9:100456600-100457800	Enhancers	Brain Hippocampus Middle	brain
49	chr9:100456600-100457800	Enhancers	Colon Smooth Muscle	Colon
50	chr9:100456600-100458000	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood

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