Variant report

Variant	rs10408169
Chromosome Location	chr19:38489094-38489095
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr19:38423561..38425591-chr19:38488215..38490133,2	MCF-7	breast:
2	chr19:38481842..38483998-chr19:38488406..38490130,2	K562	blood:
3	chr19:38487801..38491019-chr19:38493039..38496104,5	MCF-7	breast:

Extended variants
information (count: 54 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:53)

rs_ID	r²[population]
rs10401835	1.00[EUR][1000 genomes]
rs10404447	1.00[EUR][1000 genomes]
rs10405162	1.00[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10405381	1.00[EUR][1000 genomes]
rs10406765	1.00[MEX][hapmap];1.00[EUR][1000 genomes]
rs10407169	1.00[EUR][1000 genomes]
rs10407230	1.00[EUR][1000 genomes]
rs10407370	0.90[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs10407806	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10410961	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10413138	1.00[EUR][1000 genomes]
rs10413551	1.00[EUR][1000 genomes]
rs10413596	1.00[EUR][1000 genomes]
rs10413865	1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10414605	1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10414916	1.00[EUR][1000 genomes]
rs10414927	1.00[EUR][1000 genomes]
rs10415289	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10415809	1.00[EUR][1000 genomes]
rs10418855	1.00[AMR][1000 genomes]
rs10419299	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10419700	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10419708	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10419753	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10420885	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10423429	1.00[EUR][1000 genomes]
rs10424104	1.00[EUR][1000 genomes]
rs10424626	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10424818	1.00[EUR][1000 genomes]
rs10425099	1.00[EUR][1000 genomes]
rs10425571	1.00[EUR][1000 genomes]
rs13343460	1.00[MEX][hapmap];0.85[YRI][hapmap];1.00[EUR][1000 genomes]
rs28376501	1.00[EUR][1000 genomes]
rs28380555	1.00[EUR][1000 genomes]
rs28421402	1.00[EUR][1000 genomes]
rs28516776	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28540039	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28625002	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28627637	1.00[EUR][1000 genomes]
rs28637743	1.00[EUR][1000 genomes]
rs28649033	1.00[EUR][1000 genomes]
rs28660098	1.00[EUR][1000 genomes]
rs28700884	1.00[EUR][1000 genomes]
rs56134404	1.00[EUR][1000 genomes]
rs56216562	1.00[EUR][1000 genomes]
rs58260561	1.00[EUR][1000 genomes]
rs59501312	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59571293	1.00[EUR][1000 genomes]
rs61456950	1.00[EUR][1000 genomes]
rs71354969	1.00[EUR][1000 genomes]
rs73630898	1.00[EUR][1000 genomes]
rs73632925	1.00[EUR][1000 genomes]
rs73930357	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	nsv949296	chr19:38034722-38763140	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	58 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:89 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:38461600-38493600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
2	chr19:38461600-38493600	Weak transcription	Stomach Smooth Muscle	stomach
3	chr19:38470800-38494000	Weak transcription	Right Ventricle	heart
4	chr19:38471200-38493800	Weak transcription	Pancreatic Islets	Pancreatic Islet
5	chr19:38472400-38493800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
6	chr19:38472800-38489600	Weak transcription	Fetal Kidney	kidney
7	chr19:38474800-38513600	Weak transcription	Gastric	stomach
8	chr19:38477400-38491800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
9	chr19:38477600-38493800	Weak transcription	Thymus	Thymus
10	chr19:38479200-38493800	Weak transcription	Colonic Mucosa	Colon
11	chr19:38479800-38489800	Weak transcription	Rectal Mucosa Donor 31	rectum
12	chr19:38480000-38493600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
13	chr19:38480000-38493600	Weak transcription	Primary hematopoietic stem cells	blood
14	chr19:38480000-38493800	Weak transcription	Rectal Mucosa Donor 29	rectum
15	chr19:38480200-38489800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
16	chr19:38481000-38493800	Weak transcription	Small Intestine	intestine
17	chr19:38482200-38493800	Weak transcription	Brain Inferior Temporal Lobe	brain
18	chr19:38482400-38489200	Weak transcription	Adipose Nuclei	Adipose
19	chr19:38482400-38489600	Weak transcription	Psoas Muscle	Psoas
20	chr19:38482400-38490600	Strong transcription	Fetal Intestine Small	intestine
21	chr19:38482400-38493600	Weak transcription	Brain Hippocampus Middle	brain
22	chr19:38482400-38493800	Weak transcription	HUES64 Cell Line	embryonic stem cell
23	chr19:38482400-38493800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
24	chr19:38482600-38493800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
25	chr19:38482600-38494000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
26	chr19:38482600-38494000	Weak transcription	Esophagus	oesophagus
27	chr19:38482800-38489200	Weak transcription	Fetal Muscle Trunk	muscle
28	chr19:38482800-38490200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
29	chr19:38482800-38493000	Weak transcription	Primary T cells fromperipheralblood	blood
30	chr19:38482800-38493400	Weak transcription	Stomach Mucosa	stomach
31	chr19:38483000-38493600	Weak transcription	Brain Cingulate Gyrus	brain
32	chr19:38483800-38489800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
33	chr19:38483800-38493600	Weak transcription	H1 Cell Line	embryonic stem cell
34	chr19:38484600-38493800	Weak transcription	Rectal Smooth Muscle	rectum
35	chr19:38485600-38489600	Weak transcription	Skeletal Muscle Male	skeletal muscle
36	chr19:38485600-38493600	Weak transcription	Duodenum Mucosa	Duodenum
37	chr19:38485600-38493800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
38	chr19:38485800-38489600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
39	chr19:38485800-38489800	Weak transcription	Skeletal Muscle Female	skeletal muscle
40	chr19:38485800-38493600	Weak transcription	Lung	lung
41	chr19:38485800-38493800	Weak transcription	HUES6 Cell Line	embryonic stem cell
42	chr19:38485800-38496000	Weak transcription	Sigmoid Colon	Sigmoid Colon
43	chr19:38486200-38489600	Weak transcription	Spleen	Spleen
44	chr19:38486200-38489600	Weak transcription	GM12878-XiMat	blood
45	chr19:38486200-38489800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
46	chr19:38486200-38489800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
47	chr19:38486200-38490000	Weak transcription	Primary B cells from cord blood	blood
48	chr19:38486200-38490000	Weak transcription	Fetal Stomach	stomach
49	chr19:38486200-38491200	Weak transcription	Primary T cells from cord blood	blood
50	chr19:38486400-38489600	Weak transcription	Pancreas	Pancrea

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