Variant report

Variant	rs60958929
Chromosome Location	chr11:85486103-85486104
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr11:85471983..85474269-chr11:85484169..85487158,2	MCF-7	breast:
2	chr11:85484461..85487220-chr11:85491729..85494428,2	MCF-7	breast:
3	chr11:85484288..85486316-chr11:85486416..85488624,2	MCF-7	breast:

Extended variants
information (count: 57 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs10501596	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11822544	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11826413	1.00[EUR][1000 genomes]
rs11827081	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12099248	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12099426	0.94[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1445515	0.93[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17148344	1.00[EUR][1000 genomes]
rs17148395	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17148401	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17148417	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17148419	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17148431	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17148438	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17148453	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17148464	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17148473	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17148488	0.99[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17148584	1.00[EUR][1000 genomes]
rs28450318	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34050255	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35177514	1.00[EUR][1000 genomes]
rs3851177	1.00[EUR][1000 genomes]
rs4088047	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4088048	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs55739500	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56386215	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57373902	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58519079	0.92[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60068371	1.00[EUR][1000 genomes]
rs60389124	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7111778	0.93[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7115189	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7119154	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7124851	1.00[EUR][1000 genomes]
rs7129079	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73502585	1.00[EUR][1000 genomes]
rs73519658	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73519686	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7925247	0.94[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7925465	0.98[AFR][1000 genomes]
rs7928873	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7938187	1.00[EUR][1000 genomes]
rs7946866	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7950767	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:12 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1051155	chr11:85006564-85721261	Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	64 gene(s)	inside rSNPs	diseases
2	nsv541110	chr11:85006564-85721261	Enhancers Strong transcription Weak transcription Bivalent Enhancer ZNF genes & repeats Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	64 gene(s)	inside rSNPs	diseases
3	esv2758279	chr11:85180480-85603988	Flanking Active TSS Active TSS Weak transcription Enhancers Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	56 gene(s)	inside rSNPs	diseases
4	esv2759845	chr11:85180480-85603988	Flanking Active TSS Weak transcription Enhancers Genic enhancers Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	56 gene(s)	inside rSNPs	diseases
5	nsv832222	chr11:85405712-85603981	Enhancers Active TSS Bivalent Enhancer Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
6	nsv898050	chr11:85406915-85499290	Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
7	nsv555639	chr11:85436352-85495269	Enhancers Flanking Active TSS Weak transcription Genic enhancers ZNF genes & repeats Active TSS Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
8	nsv1047147	chr11:85459235-85594800	Flanking Active TSS Active TSS Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
9	nsv541114	chr11:85459235-85594800	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
10	esv2762927	chr11:85468051-85559618	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
11	nsv1052737	chr11:85477084-85554914	Enhancers Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
12	nsv541115	chr11:85477084-85554914	Weak transcription Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:47 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:85474000-85487400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr11:85475600-85488200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
3	chr11:85478200-85486200	Weak transcription	Small Intestine	intestine
4	chr11:85478600-85486200	Weak transcription	Colonic Mucosa	Colon
5	chr11:85480200-85491800	Weak transcription	Gastric	stomach
6	chr11:85483200-85492800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
7	chr11:85483400-85486200	Enhancers	Fetal Kidney	kidney
8	chr11:85483400-85486200	Enhancers	NHLF	lung
9	chr11:85483800-85486400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
10	chr11:85484200-85486400	Enhancers	Primary T cells from cord blood	blood
11	chr11:85484200-85486800	Enhancers	Fetal Intestine Large	intestine
12	chr11:85484200-85488000	Weak transcription	HUES48 Cell Line	embryonic stem cell
13	chr11:85484200-85488200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
14	chr11:85484400-85486400	Enhancers	Primary T helper cells PMA-I stimulated	--
15	chr11:85484400-85486400	Enhancers	HSMM	muscle
16	chr11:85484400-85486400	Enhancers	HSMMtube	muscle
17	chr11:85484400-85488000	Weak transcription	H9 Cell Line	embryonic stem cell
18	chr11:85484400-85488000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
19	chr11:85484400-85488000	Weak transcription	Placenta Amnion	Placenta Amnion
20	chr11:85484400-85488200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
21	chr11:85484600-85486400	Enhancers	Primary T helper naive cells from peripheral blood	blood
22	chr11:85484600-85487200	Enhancers	Stomach Mucosa	stomach
23	chr11:85484600-85488000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
24	chr11:85484600-85488000	Weak transcription	H1 Cell Line	embryonic stem cell
25	chr11:85484600-85488200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
26	chr11:85484600-85488200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
27	chr11:85484600-85488200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
28	chr11:85484600-85490800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
29	chr11:85485000-85486600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
30	chr11:85485200-85486400	Enhancers	Primary T helper cells fromperipheralblood	blood
31	chr11:85485200-85486400	Enhancers	Primary T killer memory cells from peripheral blood	blood
32	chr11:85485200-85486400	Enhancers	Duodenum Mucosa	Duodenum
33	chr11:85485200-85486600	Enhancers	Fetal Intestine Small	intestine
34	chr11:85485200-85487400	Enhancers	Sigmoid Colon	Sigmoid Colon
35	chr11:85485400-85486200	Enhancers	Primary T cells fromperipheralblood	blood
36	chr11:85485400-85486200	Enhancers	Primary T regulatory cells fromperipheralblood	blood
37	chr11:85485400-85486400	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
38	chr11:85485400-85486600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
39	chr11:85485600-85486200	Active TSS	Rectal Mucosa Donor 29	rectum
40	chr11:85485600-85492800	Weak transcription	Ovary	ovary
41	chr11:85485800-85486400	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
42	chr11:85485800-85488200	Weak transcription	Fetal Lung	lung
43	chr11:85486000-85487000	Enhancers	Rectal Mucosa Donor 31	rectum
44	chr11:85486000-85488000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
45	chr11:85486000-85488800	Enhancers	Brain Substantia Nigra	brain
46	chr11:85486000-85490800	Weak transcription	NHDF-Ad	bronchial
47	chr11:85486000-85491800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood

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