Variant report

Variant	rs11881940
Chromosome Location	chr19:41808432-41808433
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr19:41769421..41772801-chr19:41806181..41809917,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000105323	Chromatin interaction

Extended variants
information (count: 77 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:76)

rs_ID	r²[population]
rs10410836	0.98[EUR][1000 genomes]
rs10421990	1.00[CEU][hapmap];0.98[EUR][1000 genomes]
rs1056854	1.00[CEU][hapmap];0.90[JPT][hapmap];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs11466345	0.81[JPT][hapmap]
rs11466347	0.91[ASN][1000 genomes]
rs11466359	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11879429	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11879435	0.94[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11879562	1.00[CEU][hapmap];0.98[EUR][1000 genomes]
rs11880564	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11880729	0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11881953	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12327659	1.00[CEU][hapmap];0.98[EUR][1000 genomes]
rs12972266	0.96[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12972949	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12974323	0.98[EUR][1000 genomes]
rs12974420	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12976536	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12977563	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12980267	0.94[CHB][hapmap];0.91[JPT][hapmap];0.86[ASN][1000 genomes]
rs12980480	1.00[CEU][hapmap];0.98[EUR][1000 genomes]
rs12980942	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs12981053	0.83[CHB][hapmap];0.99[ASN][1000 genomes]
rs12983047	0.91[CEU][hapmap]
rs12983339	0.90[ASN][1000 genomes]
rs12984160	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12985162	0.82[CEU][hapmap];0.94[CHB][hapmap];0.91[JPT][hapmap];0.85[YRI][hapmap];0.90[AMR][1000 genomes];0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12985339	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16958994	0.89[EUR][1000 genomes]
rs16958996	0.89[EUR][1000 genomes]
rs16958999	0.89[EUR][1000 genomes]
rs1865051	0.91[CEU][hapmap];0.89[EUR][1000 genomes]
rs1865052	0.89[EUR][1000 genomes]
rs1865053	0.91[CEU][hapmap];0.92[EUR][1000 genomes]
rs1946612	0.94[CHB][hapmap];0.91[JPT][hapmap];0.89[ASN][1000 genomes]
rs1946613	0.94[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2053086	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2241718	0.91[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.84[AFR][1000 genomes];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2241719	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2241720	0.91[CEU][hapmap];0.94[CHB][hapmap];0.91[JPT][hapmap];0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2304230	1.00[CEU][hapmap];0.98[EUR][1000 genomes]
rs2304231	0.94[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2304232	0.94[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs34075897	0.86[EUR][1000 genomes]
rs34322801	0.84[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs34772093	0.82[ASN][1000 genomes]
rs34945449	0.89[EUR][1000 genomes]
rs35501756	0.84[AFR][1000 genomes];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35546772	0.83[ASN][1000 genomes]
rs35812313	0.93[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3745295	1.00[CEU][hapmap];0.98[EUR][1000 genomes]
rs3752705	1.00[CEU][hapmap];0.98[EUR][1000 genomes]
rs3760659	0.94[CHB][hapmap];0.91[JPT][hapmap];0.89[ASN][1000 genomes]
rs3760660	0.94[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3816052	1.00[CEU][hapmap];0.98[EUR][1000 genomes]
rs3826714	0.92[CEU][hapmap];0.89[EUR][1000 genomes]
rs4456618	0.92[CEU][hapmap];0.92[EUR][1000 genomes]
rs4591267	0.94[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs61459202	0.99[ASN][1000 genomes]
rs66724427	0.98[EUR][1000 genomes]
rs67511749	0.89[EUR][1000 genomes]
rs67744888	0.86[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6957	0.91[CEU][hapmap];0.86[EUR][1000 genomes]
rs7245398	0.91[CEU][hapmap];0.92[EUR][1000 genomes]
rs7248164	1.00[CEU][hapmap];0.98[EUR][1000 genomes]
rs7250883	0.94[CHB][hapmap];0.91[JPT][hapmap];0.86[ASN][1000 genomes]
rs7256416	0.98[EUR][1000 genomes]
rs7256856	0.98[EUR][1000 genomes]
rs7257310	0.91[CEU][hapmap];0.86[EUR][1000 genomes]
rs7257742	0.86[EUR][1000 genomes]
rs7257825	0.98[EUR][1000 genomes]
rs7258749	1.00[CEU][hapmap];0.98[EUR][1000 genomes]
rs8103839	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs8105161	0.91[CEU][hapmap]
rs8105901	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs8109167	0.91[CEU][hapmap];0.89[EUR][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	esv17637	chr19:41770228-41815282	Strong transcription Flanking Active TSS Enhancers Genic enhancers Active TSS Weak transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:41773200-41814400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr19:41773600-41812600	Strong transcription	A549	lung
3	chr19:41773800-41814200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
4	chr19:41773800-41814200	Strong transcription	Cortex derived primary cultured neurospheres	brain
5	chr19:41773800-41814200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
6	chr19:41774000-41812600	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
7	chr19:41774000-41814200	Strong transcription	Fetal Brain Female	brain
8	chr19:41780200-41815800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
9	chr19:41780600-41812000	Strong transcription	HUVEC	blood vessel
10	chr19:41783800-41814400	Strong transcription	Brain Germinal Matrix	brain
11	chr19:41788600-41815400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
12	chr19:41794200-41813800	Strong transcription	K562	blood
13	chr19:41795200-41814000	Strong transcription	HUES6 Cell Line	embryonic stem cell
14	chr19:41795400-41812400	Strong transcription	ES-I3 Cell Line	embryonic stem cell
15	chr19:41795400-41813800	Strong transcription	HUES48 Cell Line	embryonic stem cell
16	chr19:41795400-41814200	Strong transcription	iPS-20b Cell Line	embryonic stem cell
17	chr19:41795600-41812800	Strong transcription	H9 Cell Line	embryonic stem cell
18	chr19:41795600-41812800	Strong transcription	iPS-15b Cell Line	embryonic stem cell
19	chr19:41795600-41813200	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
20	chr19:41795600-41813800	Strong transcription	H1 Cell Line	embryonic stem cell
21	chr19:41795600-41813800	Strong transcription	iPS-18 Cell Line	embryonic stem cell
22	chr19:41795600-41814200	Strong transcription	HUES64 Cell Line	embryonic stem cell
23	chr19:41796400-41812800	Strong transcription	iPS DF 6.9 Cell Line	embryonic stem cell
24	chr19:41797400-41812600	Strong transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr19:41800000-41808800	Genic enhancers	Duodenum Mucosa	Duodenum
26	chr19:41801600-41808800	Genic enhancers	Primary mononuclear cells fromperipheralblood	Blood
27	chr19:41801600-41808800	Genic enhancers	Fetal Muscle Leg	muscle
28	chr19:41801600-41813200	Genic enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
29	chr19:41801600-41814600	Genic enhancers	Primary Natural Killer cells fromperipheralblood	blood
30	chr19:41801800-41811600	Genic enhancers	Primary T helper naive cells fromperipheralblood	blood
31	chr19:41802000-41808600	Genic enhancers	Primary T cells fromperipheralblood	blood
32	chr19:41802200-41813000	Genic enhancers	Primary hematopoietic stem cells	blood
33	chr19:41802400-41810400	Genic enhancers	Primary T cells from cord blood	blood
34	chr19:41802600-41811200	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
35	chr19:41802600-41814200	Genic enhancers	Primary B cells from peripheral blood	blood
36	chr19:41803000-41808800	Genic enhancers	Primary B cells from cord blood	blood
37	chr19:41803000-41809000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
38	chr19:41803200-41812800	Strong transcription	NHEK	skin
39	chr19:41803200-41814400	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
40	chr19:41803200-41814400	Strong transcription	HMEC	breast
41	chr19:41804000-41812800	Strong transcription	HepG2	liver
42	chr19:41804200-41813800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
43	chr19:41804400-41812000	Strong transcription	Liver	Liver
44	chr19:41804800-41814200	Strong transcription	Placenta Amnion	Placenta Amnion
45	chr19:41805000-41814200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
46	chr19:41805200-41812800	Strong transcription	Pancreas	Pancrea
47	chr19:41805200-41814200	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
48	chr19:41805200-41814400	Strong transcription	Gastric	stomach
49	chr19:41805400-41814200	Strong transcription	Fetal Intestine Large	intestine
50	chr19:41805600-41814200	Strong transcription	Fetal Intestine Small	intestine

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links