Variant report

Variant	rs11641707
Chromosome Location	chr16:12236628-12236629
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr16:12236133..12238164-chr16:12283683..12286173,2	MCF-7	breast:
2	chr16:12235977..12239654-chr16:12243100..12246222,3	K562	blood:
3	chr16:12235799..12238230-chr16:12240005..12241977,2	MCF-7	breast:

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs11075050	0.86[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs11075051	0.85[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs11075052	0.83[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs11640920	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11643720	0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11647573	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12596036	0.82[AFR][1000 genomes];0.83[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs12596081	0.82[AFR][1000 genomes];0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12596229	0.82[AFR][1000 genomes];0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12597440	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12597662	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs16958983	0.82[AFR][1000 genomes];0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs350244	1.00[YRI][hapmap]
rs4074264	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs55693041	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs55906538	0.90[AMR][1000 genomes];0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs55925548	0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs55937851	0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs55975708	0.81[AMR][1000 genomes]
rs56058313	0.94[AFR][1000 genomes];0.85[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs56225320	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57288594	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs58198539	0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs59506769	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs59855210	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6498266	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7189640	0.82[AFR][1000 genomes];0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7190611	0.82[AFR][1000 genomes];0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs73519857	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs8051768	0.82[AFR][1000 genomes];0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs8053242	0.82[CEU][hapmap];0.93[CHB][hapmap];0.82[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.88[AMR][1000 genomes];0.83[EUR][1000 genomes];0.98[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv905347	chr16:12010444-12243329	Genic enhancers Strong transcription Weak transcription Bivalent Enhancer Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	34 gene(s)	inside rSNPs	diseases
2	nsv1043096	chr16:12013915-12840769	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
3	nsv1043959	chr16:12039346-12285269	Weak transcription Enhancers Genic enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
4	nsv571460	chr16:12181702-12238602	Enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
5	nsv1052973	chr16:12188092-12307880	ZNF genes & repeats Enhancers Strong transcription Weak transcription Active TSS Genic enhancers Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
6	nsv1042146	chr16:12208242-12256699	Weak transcription ZNF genes & repeats Enhancers Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:93 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr16:12213800-12255400	Weak transcription	Gastric	stomach
2	chr16:12215400-12241600	Weak transcription	NH-A	brain
3	chr16:12217800-12241800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
4	chr16:12218600-12241200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
5	chr16:12218800-12241000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
6	chr16:12219400-12237600	Weak transcription	Fetal Intestine Large	intestine
7	chr16:12220600-12236800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
8	chr16:12221000-12237200	Weak transcription	K562	blood
9	chr16:12221600-12241600	Weak transcription	Placenta Amnion	Placenta Amnion
10	chr16:12222000-12240800	Weak transcription	Brain Anterior Caudate	brain
11	chr16:12227600-12247000	Weak transcription	Colon Smooth Muscle	Colon
12	chr16:12228600-12239600	Weak transcription	HSMMtube	muscle
13	chr16:12228600-12240800	Weak transcription	HSMM	muscle
14	chr16:12228600-12241400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
15	chr16:12228600-12243600	Weak transcription	Rectal Mucosa Donor 31	rectum
16	chr16:12228800-12239800	Weak transcription	Cortex derived primary cultured neurospheres	brain
17	chr16:12228800-12240800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
18	chr16:12229000-12249000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
19	chr16:12229200-12236800	Weak transcription	A549	lung
20	chr16:12229200-12241000	Weak transcription	Fetal Kidney	kidney
21	chr16:12229400-12240800	Weak transcription	Primary hematopoietic stem cells	blood
22	chr16:12229400-12241000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
23	chr16:12229400-12241200	Weak transcription	Primary neutrophils fromperipheralblood	blood
24	chr16:12229400-12242800	Weak transcription	Duodenum Smooth Muscle	Duodenum
25	chr16:12229400-12248000	Weak transcription	Rectal Smooth Muscle	rectum
26	chr16:12229400-12250600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
27	chr16:12229800-12241400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
28	chr16:12229800-12241400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
29	chr16:12229800-12244400	Weak transcription	Pancreatic Islets	Pancreatic Islet
30	chr16:12229800-12251400	Weak transcription	NHEK	skin
31	chr16:12229800-12253600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
32	chr16:12230000-12237400	Weak transcription	Dnd41	blood
33	chr16:12230000-12240800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
34	chr16:12230000-12245600	Weak transcription	Rectal Mucosa Donor 29	rectum
35	chr16:12230200-12241200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
36	chr16:12230200-12241800	Weak transcription	Esophagus	oesophagus
37	chr16:12230200-12242000	Weak transcription	Sigmoid Colon	Sigmoid Colon
38	chr16:12230200-12256200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
39	chr16:12230400-12239800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
40	chr16:12230600-12240800	Weak transcription	Primary T cells fromperipheralblood	blood
41	chr16:12231400-12241600	Weak transcription	Psoas Muscle	Psoas
42	chr16:12231400-12251000	Weak transcription	Ovary	ovary
43	chr16:12231400-12268000	Weak transcription	Pancreas	Pancrea
44	chr16:12231800-12241000	Weak transcription	Fetal Brain Female	brain
45	chr16:12232000-12239800	Weak transcription	Fetal Muscle Leg	muscle
46	chr16:12232000-12241000	Weak transcription	Skeletal Muscle Female	skeletal muscle
47	chr16:12232000-12248600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
48	chr16:12233400-12241000	Weak transcription	Adipose Nuclei	Adipose
49	chr16:12233600-12241200	Weak transcription	Thymus	Thymus
50	chr16:12233600-12241400	Weak transcription	Fetal Thymus	thymus

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