Variant report

Variant	rs9651674
Chromosome Location	chr11:105950671-105950672
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	chr11:105941462..105944088-chr11:105949651..105951934,2	MCF-7	breast:

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs1048683	0.90[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs10791780	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10895900	0.84[CHB][hapmap]
rs10895901	0.87[JPT][hapmap];0.93[YRI][hapmap];0.92[AFR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10895902	0.89[AFR][1000 genomes];0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10895904	0.90[CHB][hapmap];0.81[JPT][hapmap]
rs11226907	1.00[CEU][hapmap]
rs11226909	1.00[CEU][hapmap]
rs11226911	0.92[AFR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11226914	1.00[CEU][hapmap]
rs11226915	0.90[CHB][hapmap]
rs11226920	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.95[YRI][hapmap];0.98[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12365489	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs17105049	0.84[CHB][hapmap];0.90[JPT][hapmap];0.90[YRI][hapmap]
rs1893174	0.90[CHB][hapmap];0.81[ASN][1000 genomes]
rs1939798	0.90[CHB][hapmap];0.82[JPT][hapmap]
rs1939799	0.90[CHB][hapmap];0.81[JPT][hapmap]
rs2155340	0.84[CHB][hapmap];0.81[JPT][hapmap]
rs2186731	0.84[CHB][hapmap];0.81[JPT][hapmap]
rs2277278	0.88[AFR][1000 genomes]
rs3740869	0.81[CHB][hapmap];0.91[JPT][hapmap];0.82[YRI][hapmap]
rs4237618	0.86[CHB][hapmap]
rs4440991	0.90[CHB][hapmap];0.82[JPT][hapmap]
rs4474407	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap]
rs4754141	0.90[CHB][hapmap];0.82[JPT][hapmap]
rs60606604	0.88[AFR][1000 genomes]
rs7108636	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.91[YRI][hapmap];0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs754562	0.81[JPT][hapmap]
rs7554	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1048381	chr11:105945117-106561574	Weak transcription Enhancers Active TSS Genic enhancers Strong transcription Flanking Active TSS 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	13 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	chr11:105949000-105953200	Weak transcription	Gastric	stomach
2	chr11:105949000-105973400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr11:105949200-105950800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr11:105949200-105950800	Weak transcription	Colonic Mucosa	Colon
5	chr11:105949200-105952800	Weak transcription	Left Ventricle	heart
6	chr11:105949200-105956800	Weak transcription	Aorta	Aorta
7	chr11:105949200-105962200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
8	chr11:105949200-105966000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
9	chr11:105949200-105967800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
10	chr11:105949200-105969800	Weak transcription	Lung	lung
11	chr11:105949200-105971600	Weak transcription	Esophagus	oesophagus
12	chr11:105949400-105950800	Weak transcription	Rectal Mucosa Donor 31	rectum
13	chr11:105949400-105951000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
14	chr11:105949400-105951200	Enhancers	Primary T helper naive cells fromperipheralblood	blood
15	chr11:105949400-105951200	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
16	chr11:105949400-105951400	Enhancers	Primary T killer naive cells fromperipheralblood	blood
17	chr11:105949400-105953000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
18	chr11:105949400-105953600	Enhancers	Fetal Heart	heart
19	chr11:105949800-105950800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
20	chr11:105949800-105950800	Weak transcription	Primary neutrophils fromperipheralblood	blood
21	chr11:105949800-105950800	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
22	chr11:105949800-105950800	Enhancers	Fetal Intestine Large	intestine
23	chr11:105949800-105950800	Weak transcription	Fetal Muscle Leg	muscle
24	chr11:105949800-105950800	Weak transcription	Sigmoid Colon	Sigmoid Colon
25	chr11:105949800-105951000	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
26	chr11:105949800-105951000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
27	chr11:105949800-105951600	Enhancers	Brain Substantia Nigra	brain
28	chr11:105949800-105953000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
29	chr11:105949800-105953000	Weak transcription	HSMMtube	muscle
30	chr11:105949800-105953200	Weak transcription	Right Ventricle	heart
31	chr11:105949800-105956800	Weak transcription	Pancreas	Pancrea
32	chr11:105949800-105962200	Weak transcription	H9 Cell Line	embryonic stem cell
33	chr11:105949800-105962200	Weak transcription	Thymus	Thymus
34	chr11:105950000-105950800	Enhancers	Primary T helper cells PMA-I stimulated	--
35	chr11:105950000-105950800	Weak transcription	NHLF	lung
36	chr11:105950000-105951400	Genic enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
37	chr11:105950000-105952000	Genic enhancers	Primary hematopoietic stem cells short term culture	blood
38	chr11:105950000-105953200	Genic enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
39	chr11:105950000-105953200	Genic enhancers	Skeletal Muscle Female	skeletal muscle
40	chr11:105950000-105953600	Genic enhancers	Primary T cells from cord blood	blood
41	chr11:105950000-105953600	Genic enhancers	HepG2	liver
42	chr11:105950200-105950800	Active TSS	Fetal Brain Female	brain
43	chr11:105950200-105950800	Genic enhancers	Ovary	ovary
44	chr11:105950200-105951000	Enhancers	Placenta Amnion	Placenta Amnion
45	chr11:105950200-105951200	Strong transcription	Rectal Mucosa Donor 29	rectum
46	chr11:105950200-105951200	Transcr. at gene 5' and 3'	GM12878-XiMat	blood
47	chr11:105950200-105951400	Transcr. at gene 5' and 3'	Brain Anterior Caudate	brain
48	chr11:105950200-105951800	Transcr. at gene 5' and 3'	Ganglion Eminence derived primary cultured neurospheres	brain
49	chr11:105950200-105951800	Genic enhancers	Hela-S3	cervix
50	chr11:105950200-105952000	Genic enhancers	Primary hematopoietic stem cells	blood

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