Variant report

Variant	rs10409643
Chromosome Location	chr19:44681875-44681876
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr19:44681823..44684776-chr19:44686009..44688717,4	K562	blood:
2	chr19:44675915..44677580-chr19:44681750..44683462,2	K562	blood:
3	chr19:44680640..44683739-chr19:44700164..44703473,3	K562	blood:
4	chr19:44635011..44637758-chr19:44680578..44683004,2	MCF-7	breast:

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs10401758	1.00[CEU][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10405091	0.89[EUR][1000 genomes]
rs10406980	1.00[CEU][hapmap]
rs10409423	1.00[EUR][1000 genomes]
rs10409954	1.00[CEU][hapmap]
rs10410532	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs10411499	0.89[EUR][1000 genomes]
rs10415196	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs10415563	1.00[CEU][hapmap]
rs10416493	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10418460	1.00[CEU][hapmap];1.00[TSI][hapmap];0.89[EUR][1000 genomes]
rs10422609	1.00[CEU][hapmap]
rs10424371	1.00[CEU][hapmap]
rs11881753	0.89[EUR][1000 genomes]
rs12104331	0.89[EUR][1000 genomes]
rs12104332	0.89[EUR][1000 genomes]
rs1584	1.00[CEU][hapmap];1.00[TSI][hapmap];0.89[EUR][1000 genomes]
rs16959114	1.00[CEU][hapmap]
rs16978665	1.00[CEU][hapmap]
rs16978910	1.00[CEU][hapmap];1.00[TSI][hapmap];0.89[EUR][1000 genomes]
rs16978912	0.89[EUR][1000 genomes]
rs16978921	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs2232803	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs28485815	0.89[EUR][1000 genomes]
rs28671410	1.00[EUR][1000 genomes]
rs4803685	1.00[CEU][hapmap]
rs4803686	1.00[CEU][hapmap]
rs4803688	1.00[CEU][hapmap]
rs57176078	0.89[EUR][1000 genomes]
rs57706678	0.89[EUR][1000 genomes]
rs58216091	0.89[EUR][1000 genomes]
rs6509147	1.00[CEU][hapmap]
rs7250439	1.00[CEU][hapmap]
rs7253796	1.00[CEU][hapmap];1.00[TSI][hapmap];0.89[EUR][1000 genomes]
rs7255445	1.00[EUR][1000 genomes]
rs7257833	1.00[CEU][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73567997	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73934602	0.89[EUR][1000 genomes]
rs73937513	0.89[EUR][1000 genomes]
rs8111388	1.00[CEU][hapmap]
rs922063	1.00[CEU][hapmap]
rs9749373	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][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	nsv833840	chr19:44520620-44715760	Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Enhancers Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:62 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:44670600-44688200	ZNF genes & repeats	Liver	Liver
2	chr19:44670800-44682000	ZNF genes & repeats	Primary hematopoietic stem cells	blood
3	chr19:44670800-44682000	ZNF genes & repeats	Primary T regulatory cells fromperipheralblood	blood
4	chr19:44670800-44682200	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
5	chr19:44670800-44683000	ZNF genes & repeats	Duodenum Smooth Muscle	Duodenum
6	chr19:44670800-44683200	ZNF genes & repeats	Monocytes-CD14+_RO01746	blood
7	chr19:44671200-44682200	ZNF genes & repeats	Pancreatic Islets	Pancreatic Islet
8	chr19:44671400-44682600	ZNF genes & repeats	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
9	chr19:44675400-44682000	ZNF genes & repeats	Primary hematopoietic stem cells short term culture	blood
10	chr19:44675400-44682000	ZNF genes & repeats	Stomach Smooth Muscle	stomach
11	chr19:44675400-44682000	ZNF genes & repeats	GM12878-XiMat	blood
12	chr19:44675400-44682200	ZNF genes & repeats	A549	lung
13	chr19:44675400-44682600	ZNF genes & repeats	Primary T killer memory cells from peripheral blood	blood
14	chr19:44675400-44687600	ZNF genes & repeats	Adipose Nuclei	Adipose
15	chr19:44675600-44682000	ZNF genes & repeats	Primary neutrophils fromperipheralblood	blood
16	chr19:44675600-44682000	ZNF genes & repeats	Primary T cells from cord blood	blood
17	chr19:44675600-44682000	ZNF genes & repeats	Foreskin Melanocyte Primary Cells skin01	Skin
18	chr19:44675600-44682200	ZNF genes & repeats	Primary T helper cells PMA-I stimulated	--
19	chr19:44675600-44682400	ZNF genes & repeats	Primary B cells from cord blood	blood
20	chr19:44675600-44682600	ZNF genes & repeats	Primary T helper naive cells from peripheral blood	blood
21	chr19:44675600-44682600	ZNF genes & repeats	Primary T helper memory cells from peripheral blood 1	blood
22	chr19:44675600-44682800	ZNF genes & repeats	Duodenum Mucosa	Duodenum
23	chr19:44675800-44682000	ZNF genes & repeats	IMR90 fetal lung fibroblasts Cell Line	lung
24	chr19:44675800-44682000	ZNF genes & repeats	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
25	chr19:44675800-44682800	ZNF genes & repeats	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
26	chr19:44677000-44682200	ZNF genes & repeats	Foreskin Melanocyte Primary Cells skin03	Skin
27	chr19:44677000-44682800	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
28	chr19:44677000-44682800	ZNF genes & repeats	HUES64 Cell Line	embryonic stem cell
29	chr19:44677000-44682800	ZNF genes & repeats	iPS-20b Cell Line	embryonic stem cell
30	chr19:44677400-44682000	ZNF genes & repeats	Primary B cells from peripheral blood	blood
31	chr19:44678000-44682000	ZNF genes & repeats	iPS-18 Cell Line	embryonic stem cell
32	chr19:44678000-44682400	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
33	chr19:44678000-44682400	ZNF genes & repeats	HUES48 Cell Line	embryonic stem cell
34	chr19:44678200-44682000	ZNF genes & repeats	HSMM	muscle
35	chr19:44678200-44682200	ZNF genes & repeats	H1 Cell Line	embryonic stem cell
36	chr19:44678600-44682000	ZNF genes & repeats	HMEC	breast
37	chr19:44678600-44682200	ZNF genes & repeats	Brain Cingulate Gyrus	brain
38	chr19:44678800-44682000	ZNF genes & repeats	Fetal Muscle Trunk	muscle
39	chr19:44678800-44682600	ZNF genes & repeats	H9 Derived Neuron Cultured Cells	ES cell derived
40	chr19:44679000-44682000	ZNF genes & repeats	Brain Hippocampus Middle	brain
41	chr19:44679000-44682400	ZNF genes & repeats	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
42	chr19:44679000-44682400	ZNF genes & repeats	HUES6 Cell Line	embryonic stem cell
43	chr19:44679200-44682200	ZNF genes & repeats	ES-I3 Cell Line	embryonic stem cell
44	chr19:44679600-44682000	ZNF genes & repeats	Skeletal Muscle Male	skeletal muscle
45	chr19:44679600-44682200	ZNF genes & repeats	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
46	chr19:44679800-44682000	ZNF genes & repeats	Fetal Brain Female	brain
47	chr19:44680200-44682000	ZNF genes & repeats	Fetal Muscle Leg	muscle
48	chr19:44680400-44682000	ZNF genes & repeats	Fetal Heart	heart
49	chr19:44680400-44682400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
50	chr19:44681600-44682000	Weak transcription	Fetal Intestine Large	intestine

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