Variant report

Variant	rs4723896
Chromosome Location	chr7:39777723-39777724
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr7:39605904..39608255-chr7:39776499..39779006,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000241127	Chromatin interaction

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs11983705	0.82[EUR][1000 genomes]
rs11983755	0.82[EUR][1000 genomes]
rs16870185	1.00[GIH][hapmap];1.00[TSI][hapmap];0.82[EUR][1000 genomes]
rs16880073	0.82[EUR][1000 genomes]
rs17171605	0.82[EUR][1000 genomes]
rs17171606	0.82[EUR][1000 genomes]
rs2329409	0.82[EUR][1000 genomes]
rs2876857	0.82[EUR][1000 genomes]
rs2876859	0.82[EUR][1000 genomes]
rs2876860	0.82[EUR][1000 genomes]
rs4236361	0.82[EUR][1000 genomes]
rs4236362	0.82[EUR][1000 genomes]
rs4236363	0.82[EUR][1000 genomes]
rs4720332	0.91[EUR][1000 genomes]
rs4723886	0.82[EUR][1000 genomes]
rs4723890	0.91[EUR][1000 genomes]
rs56844739	0.82[EUR][1000 genomes]
rs56895888	0.82[EUR][1000 genomes]
rs59434915	0.91[EUR][1000 genomes]
rs6462941	0.86[YRI][hapmap]
rs6948816	1.00[GIH][hapmap];1.00[TSI][hapmap];0.91[EUR][1000 genomes]
rs6949371	0.91[EUR][1000 genomes]
rs6963428	0.91[EUR][1000 genomes]
rs6976303	0.86[YRI][hapmap]
rs73377388	0.82[EUR][1000 genomes]
rs73379304	0.82[EUR][1000 genomes]
rs73689214	0.91[EUR][1000 genomes]
rs73689251	0.91[EUR][1000 genomes]
rs73689252	0.91[EUR][1000 genomes]
rs73689294	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7788924	0.81[ASW][hapmap];1.00[GIH][hapmap];0.81[LWK][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7789326	0.81[ASW][hapmap];1.00[GIH][hapmap];0.81[LWK][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7805611	0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];0.91[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	nsv508451	chr7:39660784-39787222	Flanking Active TSS Weak transcription Active TSS Enhancers Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
2	nsv427777	chr7:39726513-39936904	Enhancers Weak transcription Strong transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
3	nsv887973	chr7:39772654-40110720	Strong transcription Enhancers Flanking Bivalent TSS/Enh Weak transcription Active TSS Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	58 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:71 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:39774000-39781600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr7:39774200-39781800	Weak transcription	Aorta	Aorta
3	chr7:39774200-39781800	Weak transcription	Gastric	stomach
4	chr7:39774200-39782000	Weak transcription	Fetal Intestine Small	intestine
5	chr7:39774200-39786200	Weak transcription	Fetal Intestine Large	intestine
6	chr7:39774200-39788800	Weak transcription	HSMMtube	muscle
7	chr7:39774200-39790400	Weak transcription	Fetal Kidney	kidney
8	chr7:39774200-39793400	Weak transcription	Ovary	ovary
9	chr7:39774200-39807400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
10	chr7:39774400-39783600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr7:39774400-39785200	Weak transcription	Brain Germinal Matrix	brain
12	chr7:39774400-39785600	Weak transcription	Brain Substantia Nigra	brain
13	chr7:39774400-39794000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
14	chr7:39774400-39797600	Weak transcription	Thymus	Thymus
15	chr7:39774600-39781200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
16	chr7:39774600-39781400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
17	chr7:39774600-39781800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
18	chr7:39774600-39785600	Weak transcription	Muscle Satellite Cultured Cells	--
19	chr7:39774600-39786000	Weak transcription	Fetal Thymus	thymus
20	chr7:39775200-39784000	Weak transcription	Primary B cells from cord blood	blood
21	chr7:39775400-39781200	Weak transcription	HMEC	breast
22	chr7:39775400-39785600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
23	chr7:39775400-39785600	Weak transcription	HUES64 Cell Line	embryonic stem cell
24	chr7:39775600-39785600	Weak transcription	Primary T helper cells PMA-I stimulated	--
25	chr7:39775600-39788600	Weak transcription	NHLF	lung
26	chr7:39775800-39781200	Weak transcription	NHEK	skin
27	chr7:39775800-39781400	Weak transcription	Duodenum Mucosa	Duodenum
28	chr7:39775800-39781600	Weak transcription	Primary monocytes fromperipheralblood	blood
29	chr7:39775800-39781800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
30	chr7:39775800-39781800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
31	chr7:39775800-39781800	Weak transcription	Primary B cells from peripheral blood	blood
32	chr7:39775800-39781800	Weak transcription	Fetal Muscle Trunk	muscle
33	chr7:39775800-39782000	Weak transcription	Lung	lung
34	chr7:39775800-39783400	Weak transcription	Brain Anterior Caudate	brain
35	chr7:39775800-39784200	Weak transcription	Esophagus	oesophagus
36	chr7:39775800-39785400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
37	chr7:39775800-39785400	Weak transcription	Fetal Brain Female	brain
38	chr7:39775800-39785600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
39	chr7:39775800-39785600	Weak transcription	Cortex derived primary cultured neurospheres	brain
40	chr7:39775800-39785600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
41	chr7:39775800-39786200	Weak transcription	Sigmoid Colon	Sigmoid Colon
42	chr7:39775800-39786400	Weak transcription	Spleen	Spleen
43	chr7:39775800-39788600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
44	chr7:39775800-39789000	Weak transcription	HUES6 Cell Line	embryonic stem cell
45	chr7:39775800-39789600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
46	chr7:39775800-39793400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
47	chr7:39775800-39796400	Weak transcription	Primary hematopoietic stem cells	blood
48	chr7:39775800-39807000	Weak transcription	Monocytes-CD14+_RO01746	blood
49	chr7:39775800-39811200	Weak transcription	Rectal Mucosa Donor 31	rectum
50	chr7:39776000-39781400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--

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