Variant report

Variant	rs3736669
Chromosome Location	chr4:87992753-87992754
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr4:87991629..87993752-chr4:87994519..87997259,3	K562	blood:
2	chr4:87991257..87994898-chr4:87995752..87998471,3	MCF-7	breast:
3	chr4:87929393..87932319-chr4:87992706..87994245,2	K562	blood:
4	chr4:87985538..87989484-chr4:87990047..87992954,3	MCF-7	breast:

Extended variants
information (count: 53 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs10023050	0.85[CEU][hapmap];0.90[CHB][hapmap];0.83[JPT][hapmap]
rs1037814	0.84[CEU][hapmap];0.90[CHB][hapmap];0.82[JPT][hapmap];0.82[ASN][1000 genomes]
rs11097127	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11946481	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13120301	0.86[YRI][hapmap]
rs1408	0.91[CHB][hapmap];0.82[JPT][hapmap]
rs1674999	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs16930	0.95[CHB][hapmap];0.86[JPT][hapmap];0.84[ASN][1000 genomes]
rs17012368	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2045592	0.96[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2125787	0.84[CEU][hapmap];0.90[CHB][hapmap];0.95[JPT][hapmap];0.86[AMR][1000 genomes];0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2280954	0.81[YRI][hapmap]
rs236681	0.81[YRI][hapmap]
rs236984	0.85[CEU][hapmap];0.90[CHB][hapmap];0.95[JPT][hapmap];0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs236985	0.84[CEU][hapmap];0.90[CHB][hapmap];0.95[JPT][hapmap];0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs236987	0.81[AMR][1000 genomes];0.80[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs236992	0.84[CEU][hapmap];0.90[CHB][hapmap];0.96[JPT][hapmap];0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs236993	0.84[CEU][hapmap];0.91[CHB][hapmap];0.96[JPT][hapmap];0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs236995	0.84[CEU][hapmap];0.91[CHB][hapmap];0.96[JPT][hapmap];0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs236996	0.84[CEU][hapmap];0.90[CHB][hapmap];0.95[JPT][hapmap];0.86[AMR][1000 genomes];0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs28432336	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs28677145	0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2926511	0.95[CHB][hapmap];0.82[JPT][hapmap];0.80[ASN][1000 genomes]
rs342435	0.95[CHB][hapmap];0.86[JPT][hapmap];0.84[ASN][1000 genomes]
rs342437	0.89[CEU][hapmap];0.91[CHB][hapmap];0.87[JPT][hapmap];0.84[ASN][1000 genomes]
rs342438	0.84[CEU][hapmap];0.90[CHB][hapmap];0.86[JPT][hapmap];0.84[ASN][1000 genomes]
rs342452	0.85[CEU][hapmap];0.91[CHB][hapmap];0.96[JPT][hapmap];0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs342453	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs342454	0.85[CEU][hapmap];0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs342456	0.85[CEU][hapmap];0.91[CHB][hapmap];0.96[JPT][hapmap];0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs342466	0.84[CEU][hapmap];0.90[CHB][hapmap];0.82[JPT][hapmap];0.82[ASN][1000 genomes]
rs342467	0.84[CEU][hapmap];0.90[CHB][hapmap];0.82[JPT][hapmap];0.82[ASN][1000 genomes]
rs342468	0.85[CEU][hapmap];0.91[CHB][hapmap];0.82[JPT][hapmap];0.82[ASN][1000 genomes]
rs342469	0.85[CEU][hapmap];0.91[CHB][hapmap];0.83[JPT][hapmap];0.82[ASN][1000 genomes]
rs3775214	0.84[CEU][hapmap];0.90[CHB][hapmap];0.95[JPT][hapmap];0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3775217	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3775220	0.96[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3775221	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3775223	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs442177	0.85[CEU][hapmap];0.91[CHB][hapmap];0.91[JPT][hapmap];0.90[ASN][1000 genomes]
rs4693156	0.96[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs72877984	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7660883	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9998251	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[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	nsv1009937	chr4:87795314-88008345	Weak transcription Enhancers Active TSS Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	42 gene(s)	inside rSNPs	diseases
2	nsv999176	chr4:87869996-88098136	Strong transcription Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
3	nsv998335	chr4:87869996-88104414	Flanking Active TSS Enhancers Weak transcription Strong transcription Genic enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
4	nsv1001017	chr4:87872160-88087003	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
5	nsv537166	chr4:87872160-88087003	Enhancers Weak transcription Genic enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
6	nsv999098	chr4:87899091-88016048	Enhancers Flanking Active TSS Active TSS Weak transcription Genic enhancers Strong transcription Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
7	nsv537167	chr4:87899091-88016048	Enhancers Weak transcription Genic enhancers Flanking Active TSS Active TSS Strong transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
8	nsv997750	chr4:87933945-88264127	Strong transcription Enhancers Active TSS Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
9	nsv879525	chr4:87964363-88033352	Enhancers Strong transcription Weak transcription Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:112 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:87964600-87995000	Weak transcription	Hela-S3	cervix
2	chr4:87968800-87995000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr4:87969000-87994600	Weak transcription	Placenta Amnion	Placenta Amnion
4	chr4:87980000-87994000	Weak transcription	Primary monocytes fromperipheralblood	blood
5	chr4:87981000-87994600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
6	chr4:87981200-87994000	Weak transcription	HUVEC	blood vessel
7	chr4:87981200-87994200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
8	chr4:87982600-87994000	Weak transcription	Primary T cells from cord blood	blood
9	chr4:87982600-87999600	Weak transcription	K562	blood
10	chr4:87982800-87993800	Weak transcription	Primary B cells from peripheral blood	blood
11	chr4:87982800-87994600	Weak transcription	Thymus	Thymus
12	chr4:87982800-87995000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
13	chr4:87983000-87994000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
14	chr4:87983000-87994000	Weak transcription	Primary T helper cells fromperipheralblood	blood
15	chr4:87983000-87994000	Weak transcription	Muscle Satellite Cultured Cells	--
16	chr4:87983000-87994000	Weak transcription	HepG2	liver
17	chr4:87983000-87994400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
18	chr4:87983600-87993800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
19	chr4:87983600-87993800	Weak transcription	HMEC	breast
20	chr4:87983600-87994400	Weak transcription	Primary neutrophils fromperipheralblood	blood
21	chr4:87984000-87994800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
22	chr4:87988800-87994000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
23	chr4:87988800-87994200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
24	chr4:87989000-87992800	Weak transcription	Primary T helper cells PMA-I stimulated	--
25	chr4:87989000-87994000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
26	chr4:87989200-87992800	Enhancers	Fetal Brain Male	brain
27	chr4:87989200-87994000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
28	chr4:87989400-87994000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
29	chr4:87989800-87993800	Weak transcription	Colonic Mucosa	Colon
30	chr4:87990000-87993800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
31	chr4:87990000-87994000	Weak transcription	NHLF	lung
32	chr4:87990000-87994400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
33	chr4:87990200-87993000	Enhancers	Fetal Heart	heart
34	chr4:87990200-87993200	Enhancers	Skeletal Muscle Female	skeletal muscle
35	chr4:87990200-87993400	Enhancers	Rectal Smooth Muscle	rectum
36	chr4:87990200-87993600	Weak transcription	Primary B cells from cord blood	blood
37	chr4:87990200-87993800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
38	chr4:87990200-87993800	Weak transcription	HUES6 Cell Line	embryonic stem cell
39	chr4:87990200-87993800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
40	chr4:87990200-87993800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
41	chr4:87990200-87994000	Weak transcription	HUES64 Cell Line	embryonic stem cell
42	chr4:87990200-87994000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
43	chr4:87990200-87994000	Weak transcription	Stomach Mucosa	stomach
44	chr4:87990200-87994000	Weak transcription	NHDF-Ad	bronchial
45	chr4:87990200-87994000	Weak transcription	NHEK	skin
46	chr4:87990200-87994400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
47	chr4:87990200-87994400	Weak transcription	Fetal Stomach	stomach
48	chr4:87990200-87994600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
49	chr4:87990200-87994600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
50	chr4:87990200-87994600	Weak transcription	iPS-20b Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links