Variant report

Variant	rs9395063
Chromosome Location	chr6:45040793-45040794
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 180 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:163)

rs_ID	r²[population]
rs1023089	0.81[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs1023090	0.91[ASN][1000 genomes]
rs1041332	0.91[CEU][hapmap];0.85[CHB][hapmap];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1080415	1.00[CEU][hapmap];0.82[CHB][hapmap];0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10807318	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10807319	0.85[ASN][1000 genomes]
rs10807320	0.83[ASN][1000 genomes]
rs10948188	0.85[CHB][hapmap]
rs10948198	0.82[CHB][hapmap];0.80[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs10948222	0.80[ASN][1000 genomes]
rs11964325	0.85[CHB][hapmap]
rs11966936	0.82[CHB][hapmap]
rs11968042	0.85[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs12190261	0.83[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs12204678	0.88[ASN][1000 genomes]
rs12205071	0.85[CHB][hapmap];0.83[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs12205274	0.80[ASN][1000 genomes]
rs12208023	0.85[CHB][hapmap];0.83[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs12208483	0.85[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs12526649	0.86[ASN][1000 genomes]
rs12529490	0.81[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs12529990	0.86[ASN][1000 genomes]
rs1284961	0.81[CEU][hapmap];0.82[CHB][hapmap];0.89[ASN][1000 genomes]
rs1284965	0.82[CHB][hapmap];0.88[ASN][1000 genomes]
rs1284969	0.82[CHB][hapmap];0.85[ASN][1000 genomes]
rs1284972	0.85[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs1284973	0.85[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs1284975	0.85[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs1284980	0.84[AMR][1000 genomes]
rs1284982	0.85[AMR][1000 genomes]
rs1284983	0.85[AMR][1000 genomes]
rs1284987	0.85[CHB][hapmap]
rs1284988	0.82[CHB][hapmap];0.85[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs1284989	0.80[ASN][1000 genomes]
rs1284992	0.85[CHB][hapmap];0.85[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs1285004	0.80[CEU][hapmap];0.85[CHB][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs1285013	0.80[CEU][hapmap];0.80[CHB][hapmap];0.86[ASN][1000 genomes]
rs1285014	0.82[CHB][hapmap];0.86[ASN][1000 genomes]
rs1285019	0.81[CEU][hapmap];0.89[ASN][1000 genomes]
rs1285022	0.88[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs1285023	0.88[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs1285026	0.82[CHB][hapmap];0.81[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs1290386	0.82[CHB][hapmap];0.89[ASN][1000 genomes]
rs1300126	0.88[AMR][1000 genomes];0.80[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1304168	0.86[ASN][1000 genomes]
rs13198471	0.82[ASN][1000 genomes]
rs13202529	0.85[ASN][1000 genomes]
rs13207575	0.83[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs13211006	0.82[ASN][1000 genomes]
rs1324531	0.85[ASN][1000 genomes]
rs1324532	0.85[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs1324537	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1324540	0.84[ASN][1000 genomes]
rs1329710	0.88[CEU][hapmap];0.84[EUR][1000 genomes]
rs1329713	0.84[ASN][1000 genomes]
rs1329714	0.81[CHB][hapmap];0.81[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs1359336	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1360197	0.88[CEU][hapmap];0.97[YRI][hapmap];0.81[EUR][1000 genomes]
rs1411148	0.92[CEU][hapmap];0.85[CHB][hapmap];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1521355	0.88[CEU][hapmap];0.97[YRI][hapmap]
rs1581777	0.85[ASN][1000 genomes]
rs1629542	0.82[CHB][hapmap];0.85[ASN][1000 genomes]
rs1748231	0.83[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs1748234	0.80[CEU][hapmap];0.85[CHB][hapmap];0.83[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs1748235	0.83[CHB][hapmap];0.83[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs1748242	0.81[CEU][hapmap];0.82[CHB][hapmap];0.85[ASN][1000 genomes]
rs1797145	0.82[CHB][hapmap];0.85[ASN][1000 genomes]
rs1797147	0.83[ASN][1000 genomes]
rs1886345	1.00[CEU][hapmap];0.80[CHB][hapmap];0.90[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1937046	0.85[CHB][hapmap];0.84[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs1937047	0.84[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs1971482	0.84[ASN][1000 genomes]
rs2093901	0.88[ASN][1000 genomes]
rs2093903	0.88[ASN][1000 genomes]
rs2186062	0.82[CHB][hapmap];0.83[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs2396375	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2396380	0.99[ASN][1000 genomes]
rs2396425	0.85[CHB][hapmap];0.88[ASN][1000 genomes]
rs34152708	0.82[ASN][1000 genomes]
rs34251367	0.86[ASN][1000 genomes]
rs35134594	0.86[ASN][1000 genomes]
rs35811020	0.83[ASN][1000 genomes]
rs35817842	0.92[ASN][1000 genomes]
rs3799986	0.88[CEU][hapmap];0.96[YRI][hapmap]
rs3920903	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4352679	0.83[ASN][1000 genomes]
rs4398713	1.00[CEU][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4412189	0.81[CHB][hapmap];0.83[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs4714836	0.85[CHB][hapmap];0.82[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs4714838	0.86[ASN][1000 genomes]
rs4714845	0.83[ASN][1000 genomes]
rs4714847	0.81[CHB][hapmap];0.85[ASN][1000 genomes]
rs4714848	0.82[CHB][hapmap];0.85[ASN][1000 genomes]
rs538801	0.89[CEU][hapmap]
rs56138724	0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6458418	0.82[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs6458419	0.82[CHB][hapmap];0.90[ASN][1000 genomes]
rs6458420	0.89[ASN][1000 genomes]
rs6458423	0.92[CEU][hapmap];0.80[CHB][hapmap];0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs6458425	1.00[CEU][hapmap];0.82[CHB][hapmap];0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6458427	0.92[CEU][hapmap];0.82[CHB][hapmap];0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6458428	0.88[ASN][1000 genomes]
rs6458430	0.88[ASN][1000 genomes]
rs67001335	0.80[EUR][1000 genomes]
rs6899378	0.89[CEU][hapmap];0.82[CHB][hapmap];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6899763	0.82[CHB][hapmap]
rs6899845	0.82[CHB][hapmap];0.99[ASN][1000 genomes]
rs6901786	0.80[CEU][hapmap];0.85[CHB][hapmap];0.88[ASN][1000 genomes]
rs6905396	0.82[CHB][hapmap];0.89[ASN][1000 genomes]
rs6910974	1.00[CEU][hapmap];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6919847	0.81[CEU][hapmap];0.81[CHB][hapmap]
rs6922660	0.82[CHB][hapmap]
rs6922772	0.81[CHB][hapmap]
rs6923436	0.85[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs6925467	0.97[YRI][hapmap];0.88[AFR][1000 genomes];0.82[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs6933553	0.92[ASN][1000 genomes]
rs6937317	0.85[ASN][1000 genomes]
rs6938316	0.87[ASN][1000 genomes]
rs6941169	0.87[ASN][1000 genomes]
rs7451423	0.80[ASN][1000 genomes]
rs7738526	0.92[CEU][hapmap];0.82[CHB][hapmap];0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7739928	0.92[CEU][hapmap];0.81[CHB][hapmap];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7742360	0.89[CEU][hapmap];0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7743116	0.83[ASN][1000 genomes]
rs7745506	0.85[ASN][1000 genomes]
rs7750380	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7758031	0.83[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs7760342	0.92[CEU][hapmap]
rs7763450	0.82[CHB][hapmap];0.83[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs7763973	0.92[ASN][1000 genomes]
rs7764102	0.83[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs7775717	0.82[EUR][1000 genomes]
rs927658	0.82[CHB][hapmap];0.89[ASN][1000 genomes]
rs9296453	0.82[CHB][hapmap];0.85[ASN][1000 genomes]
rs9296455	0.92[CEU][hapmap];0.82[CHB][hapmap];0.80[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9349309	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9349313	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9349315	0.89[ASN][1000 genomes]
rs9357469	0.98[ASN][1000 genomes]
rs9357470	0.93[ASN][1000 genomes]
rs9357478	0.86[ASN][1000 genomes]
rs9357480	0.85[ASN][1000 genomes]
rs9367214	0.92[CEU][hapmap];0.82[CHB][hapmap];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9369529	0.81[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs9369530	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9369533	0.99[ASN][1000 genomes]
rs9369534	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9381361	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9381364	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9381365	0.92[CEU][hapmap];0.85[CHB][hapmap];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9381366	0.89[ASN][1000 genomes]
rs9381373	1.00[CEU][hapmap];0.85[CHB][hapmap];0.90[YRI][hapmap];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9395065	0.81[CHB][hapmap];0.82[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs9395066	0.85[CHB][hapmap];0.89[ASN][1000 genomes]
rs9395079	0.85[ASN][1000 genomes]
rs9395086	0.85[ASN][1000 genomes]
rs9395088	0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9463076	0.92[CEU][hapmap];0.85[CHB][hapmap];0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9463081	0.85[CHB][hapmap];0.85[ASN][1000 genomes]
rs9472451	0.80[CEU][hapmap];0.85[CHB][hapmap];0.85[ASN][1000 genomes]
rs964452	0.83[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs969211	0.82[CHB][hapmap];0.83[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs988147	0.80[CEU][hapmap];0.85[CHB][hapmap];0.89[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:17 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv885861	chr6:44837356-45043618	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv1028393	chr6:44875558-45822335	Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Genic enhancers Active TSS Strong transcription Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
3	nsv538211	chr6:44875558-45822335	ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Enhancers Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
4	nsv1024370	chr6:44878053-45251451	Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
5	esv2758051	chr6:44879791-45056758	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
6	esv2759423	chr6:44879791-45056758	ZNF genes & repeats Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
7	nsv885862	chr6:44890760-45083966	Enhancers Strong transcription Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
8	nsv885863	chr6:44890760-45083966	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
9	nsv885864	chr6:44890760-45198796	Enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
10	nsv1023018	chr6:44925393-45152912	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
11	nsv538212	chr6:44925393-45152912	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
12	nsv603008	chr6:44958372-45081821	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
13	esv2762589	chr6:44982992-45044580	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
14	nsv1026728	chr6:45001948-45126730	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
15	nsv538213	chr6:45001948-45126730	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
16	nsv885865	chr6:45012223-45102025	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
17	nsv492309	chr6:45020402-45233484	Enhancers Strong transcription Weak transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	4 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs9395063	SUPT3H	cis	multi-tissue	Pritchard
rs9395063	SUPT3H	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:45037000-45042400	Weak transcription	Fetal Intestine Large	intestine
2	chr6:45037800-45043000	Weak transcription	Fetal Heart	heart
3	chr6:45038800-45041000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
4	chr6:45039200-45042600	Enhancers	Dnd41	blood
5	chr6:45039200-45043000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
6	chr6:45039400-45040800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
7	chr6:45039600-45040800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
8	chr6:45039600-45041000	Enhancers	Primary T helper cells PMA-I stimulated	--
9	chr6:45039600-45042400	Weak transcription	Primary T cells from cord blood	blood
10	chr6:45039800-45041400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
11	chr6:45039800-45044200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
12	chr6:45039800-45044600	Enhancers	Muscle Satellite Cultured Cells	--
13	chr6:45040000-45040800	Enhancers	Primary hematopoietic stem cells short term culture	blood
14	chr6:45040000-45041400	Weak transcription	Fetal Intestine Small	intestine
15	chr6:45040200-45041000	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
16	chr6:45040400-45040800	Enhancers	iPS-20b Cell Line	embryonic stem cell
17	chr6:45040400-45041000	Enhancers	iPS-18 Cell Line	embryonic stem cell
18	chr6:45040400-45041000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
19	chr6:45040400-45041200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
20	chr6:45040600-45041000	Flanking Active TSS	HUVEC	blood vessel
21	chr6:45040600-45041400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
22	chr6:45040600-45041600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
23	chr6:45040600-45041600	Enhancers	HSMM	muscle
24	chr6:45040600-45042400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
25	chr6:45040600-45044600	Enhancers	NH-A	brain

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