Variant report

Variant	rs1690321
Chromosome Location	chr15:57853977-57853978
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:57852165..57854833-chr15:57859167..57860692,2	MCF-7	breast:
2	chr15:57852020..57854891-chr15:57910947..57913888,2	MCF-7	breast:

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs11517	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11545026	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1280364	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1690319	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1690320	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1690322	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16977582	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs16977594	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs16977597	0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1908193	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2131732	0.93[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2279608	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2279609	0.93[ASN][1000 genomes]
rs2414514	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2641567	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28507301	0.80[ASN][1000 genomes]
rs2922229	1.00[CHB][hapmap]
rs2934424	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6493932	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7181371	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9744909	0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1045611	chr15:57350965-58070807	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
2	nsv1054547	chr15:57600488-57977659	Active TSS Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
3	nsv904255	chr15:57790436-57907574	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:59 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:57844600-57859000	Weak transcription	H9 Cell Line	embryonic stem cell
2	chr15:57844800-57857400	Weak transcription	HUES48 Cell Line	embryonic stem cell
3	chr15:57845200-57857600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr15:57846800-57861400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
5	chr15:57847000-57854600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr15:57847200-57854400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
7	chr15:57847600-57854400	Weak transcription	Pancreas	Pancrea
8	chr15:57847600-57859200	Weak transcription	Right Ventricle	heart
9	chr15:57847800-57859000	Weak transcription	Gastric	stomach
10	chr15:57847800-57859200	Weak transcription	Ovary	ovary
11	chr15:57847800-57859200	Weak transcription	Right Atrium	heart
12	chr15:57850200-57854400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
13	chr15:57852000-57856400	Enhancers	Stomach Mucosa	stomach
14	chr15:57852200-57854000	Enhancers	A549	lung
15	chr15:57852400-57854000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
16	chr15:57852400-57854000	Enhancers	Fetal Intestine Large	intestine
17	chr15:57852400-57855400	Enhancers	Stomach Smooth Muscle	stomach
18	chr15:57852400-57855600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
19	chr15:57853000-57854000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
20	chr15:57853200-57854000	Enhancers	Fetal Muscle Leg	muscle
21	chr15:57853200-57854000	Enhancers	Sigmoid Colon	Sigmoid Colon
22	chr15:57853200-57854200	Enhancers	HMEC	breast
23	chr15:57853200-57854400	Enhancers	Primary B cells from cord blood	blood
24	chr15:57853200-57854600	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
25	chr15:57853200-57855000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
26	chr15:57853200-57856200	Enhancers	Primary T helper cells PMA-I stimulated	--
27	chr15:57853200-57856400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
28	chr15:57853400-57854000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
29	chr15:57853400-57854000	Enhancers	Primary T helper naive cells from peripheral blood	blood
30	chr15:57853400-57854000	Enhancers	Primary T regulatory cells fromperipheralblood	blood
31	chr15:57853400-57854000	Enhancers	Muscle Satellite Cultured Cells	--
32	chr15:57853400-57854000	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
33	chr15:57853400-57854000	Enhancers	Osteobl	bone
34	chr15:57853400-57854200	Enhancers	Primary monocytes fromperipheralblood	blood
35	chr15:57853400-57855000	Enhancers	NHEK	skin
36	chr15:57853400-57855200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
37	chr15:57853400-57855400	Enhancers	Placenta Amnion	Placenta Amnion
38	chr15:57853400-57856200	Enhancers	Primary T cells from cord blood	blood
39	chr15:57853400-57856400	Enhancers	Primary T helper cells fromperipheralblood	blood
40	chr15:57853400-57856600	Enhancers	Primary hematopoietic stem cells short term culture	blood
41	chr15:57853400-57857400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
42	chr15:57853600-57854000	Flanking Active TSS	GM12878-XiMat	blood
43	chr15:57853600-57854800	Enhancers	Fetal Stomach	stomach
44	chr15:57853600-57857400	Weak transcription	Adipose Nuclei	Adipose
45	chr15:57853600-57857400	Weak transcription	Rectal Mucosa Donor 31	rectum
46	chr15:57853600-57857600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
47	chr15:57853600-57859400	Weak transcription	Colon Smooth Muscle	Colon
48	chr15:57853800-57854200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
49	chr15:57853800-57854800	Enhancers	Fetal Heart	heart
50	chr15:57853800-57854800	Enhancers	HUVEC	blood vessel

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