Variant report

Variant	rs1536904
Chromosome Location	chr6:44945171-44945172
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 114 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:100)

rs_ID	r²[population]
rs1023092	0.85[CEU][hapmap]
rs1102212	1.00[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1159132	0.85[CEU][hapmap];0.88[EUR][1000 genomes]
rs1284970	0.85[EUR][1000 genomes]
rs1284971	1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1284976	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1284977	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1284978	0.85[CEU][hapmap];0.82[EUR][1000 genomes]
rs1284981	0.85[EUR][1000 genomes]
rs1284984	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1284985	0.85[CEU][hapmap];0.85[EUR][1000 genomes]
rs1284991	0.85[CEU][hapmap];0.85[EUR][1000 genomes]
rs1284994	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1284996	0.85[EUR][1000 genomes]
rs1284997	1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1284998	1.00[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1285001	0.85[CEU][hapmap];0.85[EUR][1000 genomes]
rs1293582	0.85[CEU][hapmap]
rs1329708	1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1329712	1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1360198	0.82[CEU][hapmap];0.88[EUR][1000 genomes]
rs1411150	0.85[CEU][hapmap];0.85[EUR][1000 genomes]
rs1475533	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs1475534	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs1536906	1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1548285	0.88[EUR][1000 genomes]
rs1576380	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1576381	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1625102	0.85[EUR][1000 genomes]
rs1629619	0.85[EUR][1000 genomes]
rs1632504	0.85[CEU][hapmap];0.85[EUR][1000 genomes]
rs1748246	0.85[EUR][1000 genomes]
rs1797155	0.85[EUR][1000 genomes]
rs1797157	0.85[EUR][1000 genomes]
rs1797160	0.85[EUR][1000 genomes]
rs1797162	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2149872	0.85[CEU][hapmap]
rs2183295	0.85[CEU][hapmap];0.88[EUR][1000 genomes]
rs2396368	0.85[EUR][1000 genomes]
rs2396378	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4711808	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs4711810	0.85[CEU][hapmap]
rs4711811	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs4711812	0.85[EUR][1000 genomes]
rs4714831	1.00[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4714835	1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs480657	0.85[CEU][hapmap]
rs481914	1.00[CEU][hapmap]
rs490515	1.00[CEU][hapmap]
rs510167	0.85[CEU][hapmap]
rs519122	0.85[CEU][hapmap]
rs522282	0.82[EUR][1000 genomes]
rs528158	1.00[CEU][hapmap]
rs538857	0.85[CEU][hapmap]
rs539002	1.00[CEU][hapmap]
rs540247	0.85[CEU][hapmap];0.88[EUR][1000 genomes]
rs542910	0.82[EUR][1000 genomes]
rs551338	0.85[CEU][hapmap]
rs556352	0.85[CEU][hapmap];0.82[EUR][1000 genomes]
rs55641	1.00[CEU][hapmap];0.82[EUR][1000 genomes]
rs564286	0.85[CEU][hapmap];0.88[EUR][1000 genomes]
rs569999	0.85[CEU][hapmap]
rs588813	0.85[CEU][hapmap]
rs589285	0.82[CEU][hapmap]
rs592240	1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs603778	0.85[CEU][hapmap]
rs604040	0.85[CEU][hapmap]
rs604486	0.85[CEU][hapmap]
rs604873	0.85[CEU][hapmap]
rs609571	0.85[CEU][hapmap];0.88[EUR][1000 genomes]
rs625782	1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6458416	0.88[EUR][1000 genomes]
rs6458417	0.85[CEU][hapmap]
rs652851	0.82[EUR][1000 genomes]
rs656463	0.82[EUR][1000 genomes]
rs662599	0.85[CEU][hapmap]
rs685327	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs686938	1.00[CEU][hapmap];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6902685	0.85[CEU][hapmap];0.88[EUR][1000 genomes]
rs6912845	0.82[CEU][hapmap];0.85[EUR][1000 genomes]
rs72869128	1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs72869130	1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs72869143	1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7739872	0.88[EUR][1000 genomes]
rs7750753	0.85[CEU][hapmap]
rs7763079	1.00[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7775597	1.00[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs857318	1.00[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs857598	0.85[CEU][hapmap]
rs9357463	0.88[EUR][1000 genomes]
rs9357465	0.85[CEU][hapmap];0.85[EUR][1000 genomes]
rs9357468	0.85[EUR][1000 genomes]
rs9369525	0.85[CEU][hapmap];0.88[EUR][1000 genomes]
rs9369527	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs9381355	0.82[EUR][1000 genomes]
rs9381356	1.00[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9381363	0.85[EUR][1000 genomes]
rs9395061	1.00[CEU][hapmap];0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs9472429	1.00[CEU][hapmap];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9472430	1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:14 , 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	nsv462938	chr6:44909515-45008779	Weak transcription Enhancers ZNF genes & repeats Strong transcription Active TSS Flanking Active TSS	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
11	nsv470817	chr6:44909515-45008779	Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
12	nsv603007	chr6:44909515-45008779	Enhancers Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
13	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
14	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

No data

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:44939800-44951200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr6:44940800-44957000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
3	chr6:44941600-44947000	Enhancers	Primary T helper cells PMA-I stimulated	--
4	chr6:44942200-44946400	Enhancers	Primary T helper naive cells from peripheral blood	blood
5	chr6:44942200-44947000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
6	chr6:44942400-44946600	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
7	chr6:44942400-44946800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
8	chr6:44942800-44946800	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
9	chr6:44943000-44947000	Weak transcription	Fetal Heart	heart
10	chr6:44943400-44946600	Enhancers	Primary T helper naive cells fromperipheralblood	blood
11	chr6:44943400-44946600	Enhancers	Primary T helper cells fromperipheralblood	blood
12	chr6:44943400-44946600	Enhancers	Primary T killer memory cells from peripheral blood	blood
13	chr6:44943600-44945400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
14	chr6:44943600-44946000	Enhancers	Primary T regulatory cells fromperipheralblood	blood
15	chr6:44943800-44946200	Enhancers	Dnd41	blood
16	chr6:44944400-44945200	Enhancers	HSMMtube	muscle
17	chr6:44944800-44945200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
18	chr6:44944800-44945200	Active TSS	GM12878-XiMat	blood
19	chr6:44945000-44945200	Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
20	chr6:44945000-44946600	Enhancers	Primary T cells from cord blood	blood

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