Variant report

Variant	rs7254150
Chromosome Location	chr19:19583938-19583939
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	chr19:19496697..19498287-chr19:19583016..19585062,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000167491	Chromatin interaction

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs10404656	1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10407522	1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10409927	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10412787	1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10419026	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10419240	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10426633	0.96[YRI][hapmap];0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13344439	0.92[YRI][hapmap];0.83[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs16996085	0.96[YRI][hapmap];0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16996119	0.96[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2304097	0.87[YRI][hapmap]
rs28434154	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28553975	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60455087	0.83[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs73922883	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73922888	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs952609	0.96[YRI][hapmap];0.80[AMR][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	nsv911305	chr19:19303802-19663850	Genic enhancers Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	60 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:119 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:19577800-19598000	Weak transcription	Ovary	ovary
2	chr19:19579000-19584800	Weak transcription	Placenta Amnion	Placenta Amnion
3	chr19:19579200-19585000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
4	chr19:19579200-19585000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr19:19579200-19585400	Weak transcription	H9 Cell Line	embryonic stem cell
6	chr19:19579200-19585800	Weak transcription	Hela-S3	cervix
7	chr19:19579200-19586000	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
8	chr19:19579200-19598000	Weak transcription	Small Intestine	intestine
9	chr19:19579400-19584000	Weak transcription	Right Ventricle	heart
10	chr19:19579400-19585600	Weak transcription	Fetal Heart	heart
11	chr19:19579400-19599400	Weak transcription	Brain Angular Gyrus	brain
12	chr19:19579600-19584800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
13	chr19:19579800-19585000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
14	chr19:19579800-19585000	Weak transcription	H1 Cell Line	embryonic stem cell
15	chr19:19579800-19585000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
16	chr19:19579800-19585200	Weak transcription	Brain Germinal Matrix	brain
17	chr19:19579800-19585400	Weak transcription	Pancreatic Islets	Pancreatic Islet
18	chr19:19579800-19585400	Weak transcription	NHDF-Ad	bronchial
19	chr19:19579800-19585600	Weak transcription	Fetal Brain Female	brain
20	chr19:19579800-19587400	Weak transcription	Brain Inferior Temporal Lobe	brain
21	chr19:19579800-19591000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
22	chr19:19579800-19593400	Weak transcription	Fetal Kidney	kidney
23	chr19:19579800-19595600	Weak transcription	Osteobl	bone
24	chr19:19579800-19595800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
25	chr19:19579800-19595800	Weak transcription	Colon Smooth Muscle	Colon
26	chr19:19579800-19595800	Weak transcription	HUVEC	blood vessel
27	chr19:19579800-19598600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
28	chr19:19579800-19599200	Weak transcription	Brain Cingulate Gyrus	brain
29	chr19:19579800-19599800	Weak transcription	Brain Substantia Nigra	brain
30	chr19:19580000-19584800	Weak transcription	Muscle Satellite Cultured Cells	--
31	chr19:19580000-19585000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
32	chr19:19580000-19585000	Weak transcription	NH-A	brain
33	chr19:19580000-19585400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
34	chr19:19580000-19585600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
35	chr19:19580400-19584800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
36	chr19:19580600-19595200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
37	chr19:19580600-19597200	Weak transcription	Brain Anterior Caudate	brain
38	chr19:19580800-19593600	Strong transcription	Fetal Intestine Small	intestine
39	chr19:19581200-19584800	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
40	chr19:19581400-19589000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
41	chr19:19581600-19584200	Strong transcription	HUES6 Cell Line	embryonic stem cell
42	chr19:19581600-19585800	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
43	chr19:19581600-19587800	Strong transcription	NHEK	skin
44	chr19:19581600-19595200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
45	chr19:19581800-19584000	Strong transcription	Thymus	Thymus
46	chr19:19581800-19584400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
47	chr19:19581800-19587000	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
48	chr19:19582000-19585000	Weak transcription	Adipose Nuclei	Adipose
49	chr19:19582200-19597600	Strong transcription	Dnd41	blood
50	chr19:19582400-19584800	Weak transcription	Cortex derived primary cultured neurospheres	brain

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