Variant report

Variant	rs3927807
Chromosome Location	chr11:66998855-66998856
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:66995727..67000656-chr11:67007409..67009017,5	MCF-7	breast:

Variant related genes	Relation type
ENSG00000173120	Chromatin interaction

Extended variants
information (count: 56 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:54)

rs_ID	r²[population]
rs10896154	0.89[CEU][hapmap];0.84[CHB][hapmap];0.93[JPT][hapmap];0.86[YRI][hapmap]
rs10896167	1.00[ASW][hapmap];1.00[CEU][hapmap];0.92[CHB][hapmap];0.85[JPT][hapmap];0.92[LWK][hapmap];0.81[MKK][hapmap];0.85[YRI][hapmap];0.86[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs11227756	1.00[ASW][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.92[LWK][hapmap];0.96[MKK][hapmap];0.93[YRI][hapmap]
rs11601700	0.82[AFR][1000 genomes];0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12288107	0.92[ASW][hapmap]
rs12290164	0.92[ASW][hapmap]
rs1253778	0.84[AMR][1000 genomes]
rs12788752	1.00[ASW][hapmap];0.88[CEU][hapmap];0.83[CHB][hapmap];0.85[JPT][hapmap]
rs12789637	0.81[AMR][1000 genomes]
rs1540135	0.83[EUR][1000 genomes]
rs1558256	0.92[ASW][hapmap];0.85[CHB][hapmap];0.85[LWK][hapmap]
rs1638566	1.00[ASW][hapmap];1.00[CEU][hapmap];0.92[CHB][hapmap];0.85[JPT][hapmap];0.88[LWK][hapmap];0.81[MKK][hapmap]
rs1638567	1.00[ASW][hapmap];1.00[CEU][hapmap];0.92[CHB][hapmap];0.85[JPT][hapmap];0.88[LWK][hapmap];0.81[MKK][hapmap]
rs1638571	1.00[ASW][hapmap];1.00[CEU][hapmap];0.85[CHB][hapmap];0.85[JPT][hapmap];0.84[LWK][hapmap]
rs1638574	0.80[EUR][1000 genomes]
rs1638586	0.92[ASW][hapmap]
rs1790733	0.92[ASW][hapmap];0.85[LWK][hapmap]
rs1790740	1.00[ASW][hapmap];1.00[CEU][hapmap];0.92[CHB][hapmap];0.85[JPT][hapmap];0.88[LWK][hapmap];0.83[MKK][hapmap]
rs1790747	0.91[ASW][hapmap]
rs2001635	1.00[ASW][hapmap];0.88[CEU][hapmap];0.83[CHB][hapmap];0.92[JPT][hapmap];0.90[MKK][hapmap];0.81[YRI][hapmap]
rs2066496	0.88[CEU][hapmap]
rs2071007	1.00[ASW][hapmap];0.92[CHB][hapmap];0.86[JPT][hapmap];0.96[LWK][hapmap];0.96[MKK][hapmap];0.81[YRI][hapmap];0.84[AFR][1000 genomes];0.81[AMR][1000 genomes];0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2286620	0.88[CEU][hapmap]
rs2429462	0.80[EUR][1000 genomes]
rs2514256	0.92[ASW][hapmap];0.88[CEU][hapmap];0.85[CHB][hapmap];0.85[JPT][hapmap];0.85[LWK][hapmap]
rs2514258	0.80[EUR][1000 genomes]
rs3758943	1.00[CEU][hapmap];0.92[CHB][hapmap];0.85[JPT][hapmap]
rs3781941	1.00[ASW][hapmap];1.00[CEU][hapmap];0.92[CHB][hapmap];0.85[JPT][hapmap]
rs3781942	1.00[ASW][hapmap];1.00[CEU][hapmap];0.92[CHB][hapmap];0.85[JPT][hapmap];0.84[LWK][hapmap]
rs3781943	1.00[ASW][hapmap];1.00[CEU][hapmap];0.92[CHB][hapmap];0.85[JPT][hapmap];0.88[LWK][hapmap];0.81[MKK][hapmap];0.85[YRI][hapmap];0.83[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs4244819	1.00[ASW][hapmap];1.00[CEU][hapmap];0.83[CHB][hapmap];1.00[JPT][hapmap];0.96[LWK][hapmap];0.96[MKK][hapmap];0.86[YRI][hapmap];0.87[AMR][1000 genomes];0.80[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4255546	1.00[CEU][hapmap];0.92[CHB][hapmap];0.83[EUR][1000 genomes]
rs4375446	1.00[ASW][hapmap];1.00[CEU][hapmap];0.83[CHB][hapmap];1.00[JPT][hapmap];0.96[LWK][hapmap];0.96[MKK][hapmap];0.86[YRI][hapmap];0.84[AMR][1000 genomes];0.80[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4478996	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[JPT][hapmap];0.96[LWK][hapmap];0.96[MKK][hapmap];0.86[YRI][hapmap];0.87[AMR][1000 genomes];0.80[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4503557	0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4542419	1.00[ASW][hapmap];1.00[JPT][hapmap];0.92[LWK][hapmap];0.97[MKK][hapmap];0.86[YRI][hapmap];0.93[AMR][1000 genomes];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4930192	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs4930197	1.00[ASW][hapmap];1.00[CEU][hapmap];0.92[CHB][hapmap];0.92[JPT][hapmap]
rs4930418	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs56337023	0.84[AFR][1000 genomes];0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs608273	0.89[AMR][1000 genomes];0.80[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs646834	0.89[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs6591232	0.88[AMR][1000 genomes];0.80[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6591239	0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];0.87[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs660960	0.80[CEU][hapmap];0.84[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs674499	1.00[ASW][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.96[MKK][hapmap];0.86[YRI][hapmap];0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7106352	0.80[EUR][1000 genomes]
rs7113390	0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];0.87[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7124968	0.81[ASN][1000 genomes]
rs7480390	0.89[CEU][hapmap];0.86[CHB][hapmap];0.86[JPT][hapmap]
rs7484186	0.87[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs7930829	0.88[AMR][1000 genomes];0.80[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs872110	0.92[ASW][hapmap];0.88[CEU][hapmap];0.85[CHB][hapmap]
rs9943601	0.84[AMR][1000 genomes];0.80[EUR][1000 genomes];0.85[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv531397	chr11:66653381-67465721	Active TSS Enhancers Strong transcription Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	271 gene(s)	inside rSNPs	diseases
2	nsv532287	chr11:66784014-67023899	Weak transcription Strong transcription Bivalent Enhancer Enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	48 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:66936400-67006200	Weak transcription	Stomach Mucosa	stomach
2	chr11:66956400-67005000	Weak transcription	Fetal Heart	heart
3	chr11:66962200-66999000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr11:66964600-67002400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
5	chr11:66965200-67006400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
6	chr11:66972800-67002600	Strong transcription	Fetal Muscle Trunk	muscle
7	chr11:66973000-67005400	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
8	chr11:66980400-67002200	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
9	chr11:66980800-67005600	Weak transcription	Pancreatic Islets	Pancreatic Islet
10	chr11:66981000-67003800	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
11	chr11:66981600-67005200	Strong transcription	Primary monocytes fromperipheralblood	blood
12	chr11:66981800-67006400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
13	chr11:66982000-67005800	Strong transcription	Monocytes-CD14+_RO01746	blood
14	chr11:66982400-67003800	Strong transcription	Primary neutrophils fromperipheralblood	blood
15	chr11:66982800-67002600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
16	chr11:66982800-67002600	Strong transcription	Adipose Nuclei	Adipose
17	chr11:66987000-67006000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
18	chr11:66988400-66999000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
19	chr11:66990200-67002200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr11:66990400-67002200	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
21	chr11:66990400-67003400	Strong transcription	Fetal Muscle Leg	muscle
22	chr11:66990400-67004400	Strong transcription	Fetal Stomach	stomach
23	chr11:66990400-67005200	Strong transcription	Fetal Intestine Small	intestine
24	chr11:66990800-66999400	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
25	chr11:66990800-67000200	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
26	chr11:66990800-67000400	Strong transcription	Placenta	Placenta
27	chr11:66990800-67002400	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
28	chr11:66990800-67005400	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
29	chr11:66991000-66999600	Strong transcription	HSMMtube	muscle
30	chr11:66991000-67000000	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
31	chr11:66991000-67000600	Strong transcription	Thymus	Thymus
32	chr11:66991000-67002400	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
33	chr11:66991000-67002400	Strong transcription	Fetal Intestine Large	intestine
34	chr11:66991200-67001200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
35	chr11:66991400-66999400	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
36	chr11:66991400-67000000	Strong transcription	Stomach Smooth Muscle	stomach
37	chr11:66994200-66999600	Strong transcription	Cortex derived primary cultured neurospheres	brain
38	chr11:66994200-66999800	Strong transcription	Hela-S3	cervix
39	chr11:66994200-67002000	Strong transcription	HUES48 Cell Line	embryonic stem cell
40	chr11:66994400-66999600	Strong transcription	H1 Cell Line	embryonic stem cell
41	chr11:66994400-66999600	Strong transcription	iPS-20b Cell Line	embryonic stem cell
42	chr11:66994400-66999600	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
43	chr11:66994400-66999600	Strong transcription	Rectal Mucosa Donor 29	rectum
44	chr11:66994400-67001800	Strong transcription	Osteobl	bone
45	chr11:66994400-67002400	Strong transcription	HUES64 Cell Line	embryonic stem cell
46	chr11:66994600-66999400	Strong transcription	Brain Cingulate Gyrus	brain
47	chr11:66994600-66999600	Strong transcription	H9 Cell Line	embryonic stem cell
48	chr11:66994600-66999600	Strong transcription	Muscle Satellite Cultured Cells	--
49	chr11:66994600-66999600	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
50	chr11:66994600-66999600	Strong transcription	Rectal Mucosa Donor 31	rectum

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