Variant report

Variant	rs896599
Chromosome Location	chr15:74039548-74039549
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	chr15:74038183..74040978-chr15:74046386..74048785,2	MCF-7	breast:

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs1038094	0.85[CEU][hapmap];0.90[CHB][hapmap];0.92[CHD][hapmap];0.91[JPT][hapmap];0.87[MEX][hapmap];0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1129484	0.95[ASN][1000 genomes]
rs11638072	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12910404	0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12915175	0.93[ASN][1000 genomes]
rs12917099	0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1351159	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1351161	0.88[AMR][1000 genomes];0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1542544	0.85[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1871228	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2127019	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2279154	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2279155	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs28627084	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs28649098	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4886518	0.88[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs4886892	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4886896	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4887036	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4887039	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4887114	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7163553	0.88[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs7180214	0.88[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs8042653	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs922457	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv471252	chr15:74006691-74089793	Bivalent/Poised TSS Weak transcription Flanking Active TSS Enhancers Genic enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	nsv569970	chr15:74016622-74059081	Weak transcription Flanking Bivalent TSS/Enh Enhancers Flanking Active TSS Genic enhancers Active TSS Bivalent/Poised TSS Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:56 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:74035000-74043000	Strong transcription	Fetal Stomach	stomach
2	chr15:74035600-74039600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
3	chr15:74035600-74043800	Weak transcription	Esophagus	oesophagus
4	chr15:74035800-74042400	Weak transcription	Stomach Smooth Muscle	stomach
5	chr15:74035800-74043200	Weak transcription	Brain Substantia Nigra	brain
6	chr15:74036400-74041200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
7	chr15:74037000-74041400	Weak transcription	HUES64 Cell Line	embryonic stem cell
8	chr15:74038000-74040800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
9	chr15:74038000-74040800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
10	chr15:74038200-74040800	Enhancers	Fetal Brain Female	brain
11	chr15:74038400-74039600	Enhancers	Spleen	Spleen
12	chr15:74038600-74039800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr15:74038600-74039800	Enhancers	Cortex derived primary cultured neurospheres	brain
14	chr15:74038600-74039800	Enhancers	Brain Inferior Temporal Lobe	brain
15	chr15:74038600-74039800	Bivalent Enhancer	Fetal Muscle Trunk	muscle
16	chr15:74038600-74040000	Enhancers	HSMMtube	muscle
17	chr15:74038600-74040200	Bivalent Enhancer	Fetal Muscle Leg	muscle
18	chr15:74038600-74041200	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
19	chr15:74038600-74041400	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr15:74038600-74041600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
21	chr15:74038600-74042400	Enhancers	Brain Anterior Caudate	brain
22	chr15:74038800-74039600	Enhancers	H1 Cell Line	embryonic stem cell
23	chr15:74038800-74039600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
24	chr15:74038800-74039600	Enhancers	HUES6 Cell Line	embryonic stem cell
25	chr15:74038800-74039600	Bivalent Enhancer	IMR90 fetal lung fibroblasts Cell Line	lung
26	chr15:74038800-74039600	Enhancers	Brain Angular Gyrus	brain
27	chr15:74038800-74039600	Enhancers	Right Atrium	heart
28	chr15:74038800-74039600	Enhancers	Right Ventricle	heart
29	chr15:74038800-74039800	Enhancers	Adipose Nuclei	Adipose
30	chr15:74038800-74039800	Enhancers	Ovary	ovary
31	chr15:74038800-74040000	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
32	chr15:74038800-74040000	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
33	chr15:74038800-74040000	Bivalent Enhancer	Skeletal Muscle Female	skeletal muscle
34	chr15:74038800-74041400	Enhancers	Brain Cingulate Gyrus	brain
35	chr15:74038800-74043200	Enhancers	Fetal Brain Male	brain
36	chr15:74039000-74039600	Enhancers	Brain Hippocampus Middle	brain
37	chr15:74039000-74039800	Enhancers	ES-I3 Cell Line	embryonic stem cell
38	chr15:74039000-74039800	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
39	chr15:74039000-74039800	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
40	chr15:74039000-74039800	Bivalent Enhancer	Placenta	Placenta
41	chr15:74039000-74039800	Enhancers	Left Ventricle	heart
42	chr15:74039000-74040200	Weak transcription	Brain Germinal Matrix	brain
43	chr15:74039200-74039600	Enhancers	H9 Cell Line	embryonic stem cell
44	chr15:74039200-74039600	Enhancers	HUES48 Cell Line	embryonic stem cell
45	chr15:74039200-74039600	Bivalent Enhancer	Fetal Adrenal Gland	Adrenal Gland
46	chr15:74039200-74039600	Enhancers	Fetal Heart	heart
47	chr15:74039200-74039600	Enhancers	Fetal Kidney	kidney
48	chr15:74039200-74039600	Enhancers	Hela-S3	cervix
49	chr15:74039200-74039800	Bivalent Enhancer	Foreskin Fibroblast Primary Cells skin02	Skin
50	chr15:74039200-74039800	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin

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