Variant report

Variant	rs13128399
Chromosome Location	chr4:26337615-26337616
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	chr4:26336051..26338341-chr4:26341171..26342937,2	MCF-7	breast:

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs13109842	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13135696	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13144326	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13148482	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17639483	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs1877207	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2725304	0.90[YRI][hapmap]
rs2725305	0.86[YRI][hapmap]
rs2725309	0.84[YRI][hapmap]
rs28465688	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3109839	0.84[CEU][hapmap]
rs3109843	0.84[YRI][hapmap]
rs3109849	0.82[YRI][hapmap]
rs34388070	0.81[ASN][1000 genomes]
rs35323831	0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3762930	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4692523	0.80[EUR][1000 genomes]
rs56352330	0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[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	nsv829889	chr4:26169954-26338313	Active TSS Flanking Active TSS Enhancers Weak transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:78 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:26323800-26374400	Weak transcription	Lung	lung
2	chr4:26325000-26338000	Weak transcription	Rectal Mucosa Donor 29	rectum
3	chr4:26325000-26374200	Weak transcription	Fetal Intestine Large	intestine
4	chr4:26325600-26343600	Weak transcription	Primary T cells from cord blood	blood
5	chr4:26325800-26343000	Weak transcription	Fetal Stomach	stomach
6	chr4:26326000-26341600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
7	chr4:26326000-26344200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
8	chr4:26326600-26339600	Weak transcription	Fetal Muscle Trunk	muscle
9	chr4:26328800-26343600	Weak transcription	Sigmoid Colon	Sigmoid Colon
10	chr4:26329000-26341800	Weak transcription	GM12878-XiMat	blood
11	chr4:26329000-26343200	Weak transcription	HMEC	breast
12	chr4:26329000-26343400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
13	chr4:26329400-26342800	Weak transcription	NHEK	skin
14	chr4:26330600-26342600	Weak transcription	NHLF	lung
15	chr4:26332400-26338000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
16	chr4:26332400-26343600	Weak transcription	Duodenum Mucosa	Duodenum
17	chr4:26332600-26342000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
18	chr4:26332600-26343800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
19	chr4:26333000-26341000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
20	chr4:26333000-26341400	Weak transcription	Placenta	Placenta
21	chr4:26333000-26341800	Weak transcription	HSMM	muscle
22	chr4:26333000-26343200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
23	chr4:26333000-26343600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
24	chr4:26333000-26343600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
25	chr4:26333000-26343600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
26	chr4:26333000-26343600	Weak transcription	Fetal Brain Female	brain
27	chr4:26333400-26338600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
28	chr4:26333400-26338600	Weak transcription	Thymus	Thymus
29	chr4:26333400-26338800	Weak transcription	Fetal Thymus	thymus
30	chr4:26333400-26340600	Weak transcription	Ovary	ovary
31	chr4:26333400-26341800	Weak transcription	Spleen	Spleen
32	chr4:26333400-26342800	Weak transcription	HUES6 Cell Line	embryonic stem cell
33	chr4:26333400-26342800	Weak transcription	Right Atrium	heart
34	chr4:26333400-26343000	Weak transcription	Pancreas	Pancrea
35	chr4:26333400-26343400	Weak transcription	Aorta	Aorta
36	chr4:26333400-26343600	Weak transcription	Fetal Muscle Leg	muscle
37	chr4:26333400-26343800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
38	chr4:26333400-26356200	Weak transcription	Primary T cells fromperipheralblood	blood
39	chr4:26333600-26338200	Enhancers	Primary neutrophils fromperipheralblood	blood
40	chr4:26333600-26338600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
41	chr4:26333600-26338800	Weak transcription	Primary T helper cells fromperipheralblood	blood
42	chr4:26333600-26340000	Weak transcription	Stomach Mucosa	stomach
43	chr4:26333600-26342800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
44	chr4:26333600-26342800	Weak transcription	Small Intestine	intestine
45	chr4:26333600-26343000	Weak transcription	Left Ventricle	heart
46	chr4:26333600-26343400	Weak transcription	Adipose Nuclei	Adipose
47	chr4:26333600-26343600	Weak transcription	Brain Germinal Matrix	brain
48	chr4:26333600-26347200	Weak transcription	H9 Cell Line	embryonic stem cell
49	chr4:26333800-26341800	Weak transcription	Brain Substantia Nigra	brain
50	chr4:26333800-26342600	Weak transcription	iPS-20b Cell Line	embryonic stem cell

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