Variant report

Variant	rs11941636
Chromosome Location	chr4:110414993-110414994
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:110406792..110410897-chr4:110414033..110418121,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000207988	Chromatin interaction

Extended variants
information (count: 53 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:49)

rs_ID	r²[population]
rs10488879	0.81[ASN][1000 genomes]
rs10516557	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11098033	0.83[EUR][1000 genomes]
rs11098035	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11934486	1.00[EUR][1000 genomes]
rs11935440	0.85[EUR][1000 genomes]
rs11935629	0.85[EUR][1000 genomes]
rs11937053	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11938593	0.85[EUR][1000 genomes]
rs11942928	0.85[EUR][1000 genomes]
rs11943384	0.85[EUR][1000 genomes]
rs11943430	0.85[EUR][1000 genomes]
rs11944375	0.85[EUR][1000 genomes]
rs11944659	0.93[EUR][1000 genomes]
rs12639832	0.85[EUR][1000 genomes]
rs12639835	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12640161	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12641472	0.88[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs12642304	0.84[EUR][1000 genomes]
rs12643844	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12643881	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12644055	0.85[EUR][1000 genomes]
rs12647695	0.85[EUR][1000 genomes]
rs12648138	1.00[EUR][1000 genomes]
rs12650654	0.85[EUR][1000 genomes]
rs12650873	0.85[EUR][1000 genomes]
rs13128221	1.00[ASN][1000 genomes]
rs17040410	0.85[EUR][1000 genomes]
rs17040446	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17040454	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17040512	0.89[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs17040519	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28527792	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28611124	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61439452	0.85[EUR][1000 genomes]
rs61553525	0.85[EUR][1000 genomes]
rs6533429	0.85[EUR][1000 genomes]
rs6815455	0.85[EUR][1000 genomes]
rs6821051	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6821221	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6823032	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6851517	0.85[EUR][1000 genomes]
rs72892766	0.80[EUR][1000 genomes]
rs72896619	1.00[EUR][1000 genomes]
rs72896622	1.00[EUR][1000 genomes]
rs72896625	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72896629	1.00[EUR][1000 genomes]
rs7436745	0.85[EUR][1000 genomes]
rs7440371	0.85[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv461613	chr4:109922064-110593460	Enhancers Flanking Active TSS Weak transcription Bivalent/Poised TSS Bivalent Enhancer Strong transcription Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
2	nsv595129	chr4:109922064-110593460	Strong transcription Weak transcription Active TSS Bivalent/Poised TSS Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
3	esv3349784	chr4:110348873-110723163	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
4	nsv525385	chr4:110395146-110466413	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS	TF binding region CpG island Chromatin interactive region miRNA miRNA target site	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:110378800-110415800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr4:110385600-110415800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr4:110385600-110415800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
4	chr4:110385600-110415800	Weak transcription	Esophagus	oesophagus
5	chr4:110385800-110415600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr4:110385800-110415800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
7	chr4:110385800-110415800	Weak transcription	Colonic Mucosa	Colon
8	chr4:110386000-110415800	Weak transcription	Stomach Smooth Muscle	stomach
9	chr4:110386200-110415800	Weak transcription	Lung	lung
10	chr4:110386200-110415800	Weak transcription	Spleen	Spleen
11	chr4:110386400-110415600	Weak transcription	H1 Cell Line	embryonic stem cell
12	chr4:110386400-110415800	Weak transcription	Skeletal Muscle Male	skeletal muscle
13	chr4:110386600-110415600	Weak transcription	H9 Cell Line	embryonic stem cell
14	chr4:110386800-110415600	Weak transcription	Sigmoid Colon	Sigmoid Colon
15	chr4:110387000-110415600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
16	chr4:110387000-110415800	Weak transcription	Fetal Brain Male	brain
17	chr4:110387000-110415800	Weak transcription	Fetal Brain Female	brain
18	chr4:110387000-110416400	Weak transcription	Right Ventricle	heart
19	chr4:110387200-110415600	Weak transcription	Cortex derived primary cultured neurospheres	brain
20	chr4:110387600-110415600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
21	chr4:110390000-110415400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
22	chr4:110391800-110415400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
23	chr4:110391800-110415600	Weak transcription	Ovary	ovary
24	chr4:110393000-110415600	Weak transcription	Fetal Stomach	stomach
25	chr4:110393000-110415600	Weak transcription	Thymus	Thymus
26	chr4:110393000-110415800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
27	chr4:110393000-110415800	Weak transcription	Gastric	stomach
28	chr4:110393000-110415800	Weak transcription	Left Ventricle	heart
29	chr4:110393000-110415800	Weak transcription	Pancreas	Pancrea
30	chr4:110393000-110417400	Weak transcription	Psoas Muscle	Psoas
31	chr4:110393200-110415600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
32	chr4:110393200-110415800	Weak transcription	Small Intestine	intestine
33	chr4:110393200-110422600	Weak transcription	Right Atrium	heart
34	chr4:110393600-110415600	Weak transcription	Placenta Amnion	Placenta Amnion
35	chr4:110393800-110415400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
36	chr4:110393800-110415600	Weak transcription	NHLF	lung
37	chr4:110393800-110415800	Weak transcription	Aorta	Aorta
38	chr4:110393800-110415800	Weak transcription	HSMMtube	muscle
39	chr4:110393800-110469200	Weak transcription	Stomach Mucosa	stomach
40	chr4:110394400-110415800	Weak transcription	Brain Anterior Caudate	brain
41	chr4:110395200-110415800	Weak transcription	A549	lung
42	chr4:110395600-110415800	Weak transcription	Hela-S3	cervix
43	chr4:110396200-110415800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
44	chr4:110396600-110415000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
45	chr4:110400200-110415800	Weak transcription	Rectal Smooth Muscle	rectum
46	chr4:110400200-110455400	Weak transcription	Pancreatic Islets	Pancreatic Islet
47	chr4:110400600-110415800	Weak transcription	Colon Smooth Muscle	Colon
48	chr4:110402000-110425000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
49	chr4:110403000-110415600	Weak transcription	Fetal Lung	lung
50	chr4:110403200-110415200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin

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