Variant report

Variant	rs11932005
Chromosome Location	chr4:126343448-126343449
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:126235085..126238264-chr4:126339241..126343495,6	MCF-7	breast:

Variant related genes	Relation type
ENSG00000196159	Chromatin interaction

Extended variants
information (count: 111 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:108)

rs_ID	r²[population]
rs10006602	0.81[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs10010000	0.89[AFR][1000 genomes]
rs10021774	1.00[YRI][hapmap]
rs10025691	1.00[YRI][hapmap]
rs10025821	0.89[AFR][1000 genomes]
rs10025859	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10031471	1.00[YRI][hapmap]
rs10084893	1.00[YRI][hapmap]
rs10857105	0.81[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs11941296	0.89[AFR][1000 genomes]
rs12640965	1.00[YRI][hapmap]
rs12650153	1.00[YRI][hapmap];0.89[AFR][1000 genomes]
rs13119663	1.00[EUR][1000 genomes]
rs13132307	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13144799	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13144803	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1354711	0.83[YRI][hapmap];1.00[EUR][1000 genomes]
rs1354712	1.00[EUR][1000 genomes]
rs1355159	1.00[YRI][hapmap]
rs1395232	1.00[EUR][1000 genomes]
rs1395234	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1395235	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1395242	1.00[EUR][1000 genomes]
rs1395243	1.00[YRI][hapmap];0.89[AFR][1000 genomes]
rs1396687	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1506356	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1506358	1.00[EUR][1000 genomes]
rs1509288	0.83[YRI][hapmap]
rs1509293	0.81[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs1509294	0.81[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs1509295	0.81[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs1509296	0.81[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs1509297	0.81[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs1509298	0.81[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs1509301	0.81[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs1553713	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1553714	1.00[YRI][hapmap]
rs1605825	0.81[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs1605826	0.81[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs1605827	0.81[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs1911107	0.81[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs1912041	0.83[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1912042	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1983117	1.00[YRI][hapmap]
rs1983118	0.83[YRI][hapmap];1.00[EUR][1000 genomes]
rs2036723	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2036724	1.00[YRI][hapmap]
rs2055768	0.83[YRI][hapmap]
rs2135427	1.00[YRI][hapmap]
rs2135428	1.00[YRI][hapmap];0.89[AFR][1000 genomes]
rs2135429	1.00[YRI][hapmap]
rs2390835	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2390836	1.00[YRI][hapmap]
rs2390839	1.00[YRI][hapmap]
rs2390840	1.00[YRI][hapmap];0.89[AFR][1000 genomes]
rs2390841	1.00[YRI][hapmap]
rs2710577	0.83[YRI][hapmap]
rs28566737	1.00[EUR][1000 genomes]
rs2893131	1.00[YRI][hapmap]
rs4508902	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4585321	1.00[YRI][hapmap];0.89[AFR][1000 genomes]
rs4605670	0.89[AFR][1000 genomes]
rs4834030	1.00[YRI][hapmap];0.89[AFR][1000 genomes]
rs4834032	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4834033	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4834034	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4834036	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4834037	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4834038	1.00[EUR][1000 genomes]
rs4834039	1.00[YRI][hapmap]
rs4834041	1.00[YRI][hapmap];0.89[AFR][1000 genomes]
rs4834043	1.00[YRI][hapmap];0.89[AFR][1000 genomes]
rs4834047	1.00[YRI][hapmap]
rs4996182	1.00[YRI][hapmap]
rs6534479	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6534480	1.00[YRI][hapmap]
rs6534484	1.00[YRI][hapmap]
rs6534485	1.00[YRI][hapmap]
rs6816596	0.89[AFR][1000 genomes]
rs6833240	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6850220	1.00[YRI][hapmap]
rs6851018	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6851098	0.89[AFR][1000 genomes]
rs72914988	1.00[EUR][1000 genomes]
rs7656135	0.89[AFR][1000 genomes]
rs7656590	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7660088	0.81[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs7660325	0.81[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs7661810	0.89[AFR][1000 genomes]
rs7667605	1.00[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7668690	1.00[YRI][hapmap]
rs7675556	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7678076	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7683955	1.00[YRI][hapmap]
rs7699122	1.00[YRI][hapmap];0.89[AFR][1000 genomes]
rs906794	0.83[YRI][hapmap]
rs925241	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs958415	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs958844	0.89[AFR][1000 genomes]
rs958845	1.00[YRI][hapmap]
rs963397	0.89[AFR][1000 genomes]
rs988314	1.00[YRI][hapmap];0.89[AFR][1000 genomes]
rs988863	1.00[YRI][hapmap];0.89[AFR][1000 genomes]
rs988933	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9968423	1.00[YRI][hapmap]
rs9991326	1.00[YRI][hapmap];0.89[AFR][1000 genomes]
rs9994836	0.81[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs9996895	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1006068	chr4:126103233-126497467	Enhancers ZNF genes & repeats Strong transcription Weak transcription Flanking Active TSS Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
2	nsv830051	chr4:126234895-126403426	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
3	nsv470070	chr4:126299145-126408586	Flanking Active TSS Weak transcription Enhancers Strong transcription ZNF genes & repeats Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:44 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:126311800-126343600	Weak transcription	Fetal Stomach	stomach
2	chr4:126312000-126354400	Weak transcription	HSMM	muscle
3	chr4:126316600-126354600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
4	chr4:126319000-126343800	Weak transcription	HUES64 Cell Line	embryonic stem cell
5	chr4:126320200-126354400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
6	chr4:126320600-126344400	Weak transcription	Lung	lung
7	chr4:126324800-126344400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
8	chr4:126329000-126344000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
9	chr4:126329600-126344400	Weak transcription	Fetal Intestine Small	intestine
10	chr4:126334600-126390400	Weak transcription	Cortex derived primary cultured neurospheres	brain
11	chr4:126335000-126343600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
12	chr4:126335000-126344000	Weak transcription	Brain Hippocampus Middle	brain
13	chr4:126335200-126353200	Weak transcription	Psoas Muscle	Psoas
14	chr4:126335200-126400800	Weak transcription	Skeletal Muscle Female	skeletal muscle
15	chr4:126336400-126344400	Weak transcription	H9 Cell Line	embryonic stem cell
16	chr4:126336800-126344400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
17	chr4:126336800-126351000	Weak transcription	Fetal Brain Male	brain
18	chr4:126337000-126364400	Weak transcription	Duodenum Smooth Muscle	Duodenum
19	chr4:126337800-126356000	Weak transcription	Adipose Nuclei	Adipose
20	chr4:126337800-126356600	Weak transcription	Liver	Liver
21	chr4:126338400-126353200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
22	chr4:126338600-126343600	Weak transcription	Fetal Muscle Leg	muscle
23	chr4:126338600-126344000	Weak transcription	Fetal Brain Female	brain
24	chr4:126338600-126344400	Weak transcription	Aorta	Aorta
25	chr4:126338600-126371000	Weak transcription	Stomach Smooth Muscle	stomach
26	chr4:126338800-126344200	Weak transcription	Fetal Muscle Trunk	muscle
27	chr4:126338800-126344400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
28	chr4:126338800-126344400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
29	chr4:126338800-126371400	Weak transcription	Fetal Intestine Large	intestine
30	chr4:126339000-126355400	Weak transcription	Left Ventricle	heart
31	chr4:126341000-126344400	Weak transcription	Ovary	ovary
32	chr4:126341200-126349200	Weak transcription	Rectal Smooth Muscle	rectum
33	chr4:126341400-126345400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
34	chr4:126342000-126353200	Weak transcription	Fetal Heart	heart
35	chr4:126342200-126344200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
36	chr4:126342400-126375400	Weak transcription	Right Ventricle	heart
37	chr4:126342600-126371800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
38	chr4:126342800-126344200	Weak transcription	Fetal Kidney	kidney
39	chr4:126343000-126354200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
40	chr4:126343200-126345800	Strong transcription	Fetal Lung	lung
41	chr4:126343200-126354400	Weak transcription	HUVEC	blood vessel
42	chr4:126343400-126345000	Strong transcription	Muscle Satellite Cultured Cells	--
43	chr4:126343400-126345600	ZNF genes & repeats	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
44	chr4:126343400-126345800	ZNF genes & repeats	HUES6 Cell Line	embryonic stem cell

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