Variant report

Variant	rs4945090
Chromosome Location	chr11:76205018-76205019
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 55 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:53)

rs_ID	r²[population]
rs10793167	0.85[CEU][hapmap];0.87[CHB][hapmap];0.88[JPT][hapmap];0.92[YRI][hapmap];0.91[AFR][1000 genomes];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10793169	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.98[AFR][1000 genomes];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10793171	0.96[CEU][hapmap];0.81[JPT][hapmap];0.83[YRI][hapmap];0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10899217	0.85[EUR][1000 genomes]
rs10899219	0.87[AFR][1000 genomes]
rs10899220	0.88[AFR][1000 genomes]
rs10899222	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10899225	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10899227	1.00[CEU][hapmap];0.88[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11236749	0.96[AFR][1000 genomes];0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11236752	0.81[AFR][1000 genomes];0.90[EUR][1000 genomes]
rs11606394	0.87[YRI][hapmap];0.89[AFR][1000 genomes]
rs17749618	0.81[CEU][hapmap]
rs1939467	0.85[CEU][hapmap]
rs1939468	0.81[CEU][hapmap]
rs2251075	0.85[YRI][hapmap]
rs2508738	0.84[AFR][1000 genomes]
rs2508740	1.00[CEU][hapmap];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2508741	1.00[CEU][hapmap];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2508753	0.90[AFR][1000 genomes];0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2508756	0.87[YRI][hapmap];0.80[AFR][1000 genomes]
rs2508759	0.81[AFR][1000 genomes];0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2508760	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.97[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2508761	1.00[CEU][hapmap];0.81[JPT][hapmap];0.83[YRI][hapmap];0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2508762	1.00[CEU][hapmap];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2513504	0.96[CEU][hapmap]
rs2513505	0.92[AFR][1000 genomes];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2513508	1.00[CEU][hapmap];0.87[YRI][hapmap];0.83[AFR][1000 genomes];0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2513513	0.96[CEU][hapmap];0.83[YRI][hapmap];0.83[AMR][1000 genomes]
rs2513515	0.85[YRI][hapmap];0.88[AFR][1000 genomes]
rs2513520	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];0.97[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2513523	0.82[AFR][1000 genomes];0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2513525	0.96[CEU][hapmap];0.91[YRI][hapmap]
rs3016373	0.87[AFR][1000 genomes]
rs3753051	0.81[CEU][hapmap]
rs3814711	0.96[CEU][hapmap];0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4245443	0.92[CEU][hapmap];0.81[JPT][hapmap];0.83[YRI][hapmap];0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4272809	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4300410	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.98[AFR][1000 genomes];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4625500	0.84[YRI][hapmap];0.87[AFR][1000 genomes]
rs4945087	0.87[YRI][hapmap];0.84[AFR][1000 genomes]
rs5023625	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6592635	0.87[AFR][1000 genomes];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7106564	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7107058	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.98[AFR][1000 genomes];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7109548	0.91[AFR][1000 genomes];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7123361	0.88[CEU][hapmap]
rs7125552	0.86[CEU][hapmap]
rs7926009	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.98[AFR][1000 genomes];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7940390	0.84[AFR][1000 genomes]
rs7942257	0.82[CEU][hapmap]
rs7949258	0.85[CEU][hapmap]
rs8848	0.96[CEU][hapmap];0.81[JPT][hapmap];0.83[YRI][hapmap];0.82[AMR][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	nsv1050713	chr11:76147085-76267117	Transcr. at gene 5' and 3' Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Enhancers Active TSS Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	45 gene(s)	inside rSNPs	diseases
2	esv3383733	chr11:76186353-76225544	Strong transcription Weak transcription ZNF genes & repeats Enhancers Genic enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:121 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:76166800-76219400	Weak transcription	Small Intestine	intestine
2	chr11:76168800-76234800	Weak transcription	Psoas Muscle	Psoas
3	chr11:76171200-76221200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr11:76184400-76235000	Weak transcription	NHEK	skin
5	chr11:76189000-76231400	Weak transcription	Muscle Satellite Cultured Cells	--
6	chr11:76189200-76211600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
7	chr11:76189400-76223000	Weak transcription	HUVEC	blood vessel
8	chr11:76190600-76207200	Weak transcription	Brain Substantia Nigra	brain
9	chr11:76190800-76234200	Weak transcription	Left Ventricle	heart
10	chr11:76191400-76205600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
11	chr11:76191400-76206600	Weak transcription	Fetal Brain Male	brain
12	chr11:76191400-76207000	Weak transcription	Brain Cingulate Gyrus	brain
13	chr11:76191400-76211200	Weak transcription	NH-A	brain
14	chr11:76191400-76211400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
15	chr11:76191400-76211400	Weak transcription	Fetal Kidney	kidney
16	chr11:76191400-76211400	Weak transcription	HMEC	breast
17	chr11:76191400-76211600	Weak transcription	Fetal Heart	heart
18	chr11:76191400-76221200	Weak transcription	H9 Cell Line	embryonic stem cell
19	chr11:76191400-76239000	Weak transcription	Colon Smooth Muscle	Colon
20	chr11:76191600-76207000	Weak transcription	HSMM	muscle
21	chr11:76191600-76207200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
22	chr11:76191600-76207200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
23	chr11:76191600-76231600	Weak transcription	NHDF-Ad	bronchial
24	chr11:76192000-76207200	Weak transcription	Osteobl	bone
25	chr11:76192200-76207200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
26	chr11:76192600-76205200	Weak transcription	Duodenum Mucosa	Duodenum
27	chr11:76192600-76206600	Weak transcription	HUES64 Cell Line	embryonic stem cell
28	chr11:76192800-76207000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
29	chr11:76192800-76221200	Weak transcription	H1 Cell Line	embryonic stem cell
30	chr11:76192800-76242800	Weak transcription	Rectal Smooth Muscle	rectum
31	chr11:76193600-76206400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
32	chr11:76193800-76207000	Weak transcription	HUES6 Cell Line	embryonic stem cell
33	chr11:76196000-76206400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
34	chr11:76198000-76207200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
35	chr11:76199000-76205400	Strong transcription	Dnd41	blood
36	chr11:76199000-76210600	Weak transcription	GM12878-XiMat	blood
37	chr11:76201000-76208200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
38	chr11:76201400-76212800	Strong transcription	Primary T helper cells fromperipheralblood	blood
39	chr11:76201800-76205400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
40	chr11:76202000-76205400	Strong transcription	Primary B cells from peripheral blood	blood
41	chr11:76202000-76205600	Strong transcription	Primary T cells from cord blood	blood
42	chr11:76202000-76205800	Strong transcription	Primary hematopoietic stem cells short term culture	blood
43	chr11:76202200-76205400	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
44	chr11:76202200-76205400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
45	chr11:76202200-76205600	Strong transcription	Fetal Intestine Small	intestine
46	chr11:76202200-76205800	Strong transcription	Ovary	ovary
47	chr11:76202200-76206200	Strong transcription	Fetal Muscle Trunk	muscle
48	chr11:76202200-76210200	Strong transcription	Placenta	Placenta
49	chr11:76202400-76205200	ZNF genes & repeats	Brain Germinal Matrix	brain
50	chr11:76202400-76205400	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

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