Variant report

Variant	rs61104011
Chromosome Location	chr11:100625625-100625626
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:100512013..100514802-chr11:100624099..100626304,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000242165	Chromatin interaction

Extended variants
information (count: 48 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs11224332	1.00[AMR][1000 genomes]
rs11224341	1.00[AMR][1000 genomes]
rs11224343	1.00[AMR][1000 genomes]
rs11224346	1.00[AMR][1000 genomes]
rs11224385	1.00[AMR][1000 genomes]
rs11224404	1.00[AFR][1000 genomes]
rs11224418	0.90[AFR][1000 genomes]
rs11224428	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11224429	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11224438	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11224465	1.00[AMR][1000 genomes]
rs11224525	1.00[AMR][1000 genomes]
rs12274762	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12275133	1.00[AMR][1000 genomes]
rs12277269	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12278938	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12279270	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12279931	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12281021	1.00[AMR][1000 genomes]
rs12281097	1.00[AMR][1000 genomes]
rs12284980	1.00[AFR][1000 genomes]
rs12286434	1.00[AMR][1000 genomes]
rs12286625	1.00[AMR][1000 genomes]
rs12287226	1.00[AMR][1000 genomes]
rs12295600	1.00[AMR][1000 genomes]
rs13377291	0.93[AFR][1000 genomes]
rs56805393	1.00[AMR][1000 genomes]
rs73565305	1.00[AMR][1000 genomes]
rs73565310	1.00[AMR][1000 genomes]
rs73565331	1.00[AMR][1000 genomes]
rs73565337	1.00[AMR][1000 genomes]
rs73565348	1.00[AMR][1000 genomes]
rs73567534	1.00[AMR][1000 genomes]
rs73571424	1.00[AMR][1000 genomes]
rs73573332	1.00[AMR][1000 genomes]
rs73573395	0.97[AFR][1000 genomes]
rs73575539	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73580523	1.00[AMR][1000 genomes]
rs7933646	1.00[AFR][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	nsv1053430	chr11:99888390-100629136	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS Strong transcription Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv1042067	chr11:99889697-100629136	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv1040942	chr11:99895378-100629136	Bivalent/Poised TSS Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	nsv1045190	chr11:99913193-100627395	Active TSS Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
5	nsv541153	chr11:99913193-100627395	Flanking Active TSS Enhancers Genic enhancers Weak transcription Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
6	nsv529454	chr11:99913394-100627255	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
7	nsv520995	chr11:100163957-100681211	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
8	nsv530643	chr11:100196082-100713156	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
9	nsv898327	chr11:100569021-100631075	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:48 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:100612400-100630800	Weak transcription	Right Atrium	heart
2	chr11:100613000-100631600	Weak transcription	Ovary	ovary
3	chr11:100613200-100628400	Weak transcription	Fetal Kidney	kidney
4	chr11:100620800-100626800	Weak transcription	Liver	Liver
5	chr11:100620800-100628400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
6	chr11:100621000-100642400	Weak transcription	Stomach Smooth Muscle	stomach
7	chr11:100621400-100631600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
8	chr11:100622200-100625800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
9	chr11:100623000-100626000	Enhancers	ES-I3 Cell Line	embryonic stem cell
10	chr11:100623000-100626400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
11	chr11:100623200-100626000	Enhancers	HUES48 Cell Line	embryonic stem cell
12	chr11:100623200-100626400	Enhancers	iPS-20b Cell Line	embryonic stem cell
13	chr11:100623400-100632000	Weak transcription	Sigmoid Colon	Sigmoid Colon
14	chr11:100624200-100625800	Weak transcription	Small Intestine	intestine
15	chr11:100624400-100630800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
16	chr11:100624600-100627200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
17	chr11:100624600-100628000	Weak transcription	Brain Substantia Nigra	brain
18	chr11:100624600-100629000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
19	chr11:100624600-100630800	Weak transcription	Placenta	Placenta
20	chr11:100624600-100631600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
21	chr11:100624600-100631600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
22	chr11:100624600-100631600	Weak transcription	Adipose Nuclei	Adipose
23	chr11:100624600-100635000	Weak transcription	Duodenum Smooth Muscle	Duodenum
24	chr11:100624600-100655600	Weak transcription	Left Ventricle	heart
25	chr11:100624600-100655600	Weak transcription	Right Ventricle	heart
26	chr11:100624800-100625800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
27	chr11:100624800-100625800	Weak transcription	Fetal Lung	lung
28	chr11:100624800-100627400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
29	chr11:100624800-100629000	Weak transcription	Fetal Intestine Large	intestine
30	chr11:100624800-100629000	Weak transcription	Rectal Mucosa Donor 31	rectum
31	chr11:100624800-100629800	Weak transcription	H9 Cell Line	embryonic stem cell
32	chr11:100624800-100630000	Weak transcription	Stomach Mucosa	stomach
33	chr11:100624800-100630600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
34	chr11:100624800-100634800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
35	chr11:100625000-100625800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
36	chr11:100625000-100629000	Weak transcription	HUES6 Cell Line	embryonic stem cell
37	chr11:100625000-100637600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
38	chr11:100625200-100626800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
39	chr11:100625200-100627200	Weak transcription	A549	lung
40	chr11:100625200-100627400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
41	chr11:100625200-100629000	Weak transcription	Fetal Intestine Small	intestine
42	chr11:100625200-100632200	Weak transcription	Skeletal Muscle Male	skeletal muscle
43	chr11:100625400-100625800	Weak transcription	H1 Cell Line	embryonic stem cell
44	chr11:100625400-100629400	Weak transcription	HUES64 Cell Line	embryonic stem cell
45	chr11:100625400-100629800	Weak transcription	Duodenum Mucosa	Duodenum
46	chr11:100625600-100626000	Enhancers	ES-WA7 Cell Line	embryonic stem cell
47	chr11:100625600-100627000	Weak transcription	Cortex derived primary cultured neurospheres	brain
48	chr11:100625600-100630200	Enhancers	Fetal Heart	heart

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