Variant report

Variant	rs11604470
Chromosome Location	chr11:17213323-17213324
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	chr11:17207589..17210389-chr11:17212889..17214960,2	MCF-7	breast:

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

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

rs_ID	r²[population]
rs11603461	1.00[ASN][1000 genomes]
rs11603765	1.00[CHB][hapmap]
rs11604561	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[TSI][hapmap];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11605497	0.95[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs11605779	1.00[ASN][1000 genomes]
rs11606773	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11607918	0.89[AFR][1000 genomes];0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11607974	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11608222	0.84[AFR][1000 genomes];0.90[EUR][1000 genomes]
rs11827341	1.00[ASN][1000 genomes]
rs12417522	1.00[ASN][1000 genomes]
rs12418260	1.00[ASN][1000 genomes]
rs1544609	1.00[CEU][hapmap];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16924899	1.00[CHB][hapmap]
rs16933823	1.00[CHB][hapmap]
rs16933827	1.00[CHB][hapmap]
rs17647408	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1979602	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[EUR][1000 genomes]
rs2040859	1.00[CHB][hapmap]
rs35297605	1.00[ASN][1000 genomes]
rs55763300	1.00[ASN][1000 genomes]
rs55928651	1.00[ASN][1000 genomes]
rs56254605	1.00[ASN][1000 genomes]
rs59007596	0.86[ASN][1000 genomes]
rs59075718	1.00[ASN][1000 genomes]
rs61762011	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61879669	1.00[ASN][1000 genomes]
rs61879670	1.00[ASN][1000 genomes]
rs61879673	1.00[ASN][1000 genomes]
rs61879686	1.00[ASN][1000 genomes]
rs61879698	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61879699	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61879703	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61879714	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61879715	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61879721	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61879731	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61879758	1.00[AFR][1000 genomes];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs61881312	1.00[ASN][1000 genomes]
rs61881880	0.85[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs61881884	0.84[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs61881886	0.93[EUR][1000 genomes]
rs61881889	0.93[EUR][1000 genomes]
rs61881916	0.92[EUR][1000 genomes]
rs72862099	0.93[EUR][1000 genomes]
rs72869096	1.00[ASN][1000 genomes]
rs72870840	1.00[ASN][1000 genomes]
rs7342171	0.92[EUR][1000 genomes]
rs7481457	1.00[ASN][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	nsv467711	chr11:17027555-17320797	Weak transcription Strong transcription Active TSS Genic enhancers Flanking Active TSS Enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
2	nsv553568	chr11:17027555-17320797	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
3	nsv469762	chr11:17170690-17320691	Strong transcription Active TSS Weak transcription Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
4	nsv482905	chr11:17170690-17320691	Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:122 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:17156600-17219200	Weak transcription	HSMMtube	muscle
2	chr11:17158000-17215600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
3	chr11:17165200-17215200	Weak transcription	Rectal Smooth Muscle	rectum
4	chr11:17167400-17228000	Weak transcription	Fetal Thymus	thymus
5	chr11:17172600-17214600	Weak transcription	Fetal Brain Female	brain
6	chr11:17184800-17228800	Weak transcription	Esophagus	oesophagus
7	chr11:17187000-17228000	Weak transcription	Colonic Mucosa	Colon
8	chr11:17187200-17214000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
9	chr11:17187200-17214200	Weak transcription	Right Ventricle	heart
10	chr11:17187200-17226800	Weak transcription	Small Intestine	intestine
11	chr11:17191000-17220600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
12	chr11:17191200-17227800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
13	chr11:17191400-17214400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
14	chr11:17192000-17214400	Weak transcription	Pancreatic Islets	Pancreatic Islet
15	chr11:17192400-17214400	Weak transcription	Sigmoid Colon	Sigmoid Colon
16	chr11:17192400-17217800	Weak transcription	Stomach Mucosa	stomach
17	chr11:17194000-17215400	Weak transcription	A549	lung
18	chr11:17194200-17214400	Weak transcription	Muscle Satellite Cultured Cells	--
19	chr11:17194200-17228000	Weak transcription	H9 Cell Line	embryonic stem cell
20	chr11:17197000-17215600	Weak transcription	Brain Germinal Matrix	brain
21	chr11:17197600-17228000	Weak transcription	Brain Angular Gyrus	brain
22	chr11:17198600-17214400	Weak transcription	Cortex derived primary cultured neurospheres	brain
23	chr11:17199600-17215400	Weak transcription	Primary T helper cells PMA-I stimulated	--
24	chr11:17202400-17214200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
25	chr11:17203000-17228800	Weak transcription	Spleen	Spleen
26	chr11:17204600-17214200	Weak transcription	HUES48 Cell Line	embryonic stem cell
27	chr11:17205400-17220200	Weak transcription	Aorta	Aorta
28	chr11:17206400-17214000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
29	chr11:17207400-17228200	Weak transcription	Colon Smooth Muscle	Colon
30	chr11:17207800-17214200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
31	chr11:17207800-17215000	Weak transcription	Gastric	stomach
32	chr11:17208600-17215600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
33	chr11:17208800-17227400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
34	chr11:17209400-17228000	Weak transcription	K562	blood
35	chr11:17209800-17217400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
36	chr11:17210000-17220200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
37	chr11:17210200-17220400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
38	chr11:17210400-17214400	Strong transcription	Fetal Intestine Small	intestine
39	chr11:17210400-17227400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
40	chr11:17210600-17214400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
41	chr11:17210600-17214400	Weak transcription	Brain Anterior Caudate	brain
42	chr11:17210600-17228200	Weak transcription	Brain Inferior Temporal Lobe	brain
43	chr11:17210600-17228200	Weak transcription	Brain Substantia Nigra	brain
44	chr11:17210800-17214000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
45	chr11:17210800-17222400	Weak transcription	Psoas Muscle	Psoas
46	chr11:17210800-17228000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
47	chr11:17211000-17214400	Weak transcription	Primary neutrophils fromperipheralblood	blood
48	chr11:17211000-17214400	Weak transcription	Skeletal Muscle Female	skeletal muscle
49	chr11:17211200-17214600	Weak transcription	Skeletal Muscle Male	skeletal muscle
50	chr11:17211200-17216600	Strong transcription	Fetal Stomach	stomach

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