Variant report

Variant	rs951868
Chromosome Location	chr9:103335508-103335509
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	chr9:103334520..103337877-chr9:103341239..103344703,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000200966	Chromatin interaction

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs1135455	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12002878	0.89[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs12005789	0.89[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs1226587	1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap];1.00[ASN][1000 genomes]
rs1226588	0.80[CEU][hapmap];0.85[MEX][hapmap];0.91[TSI][hapmap];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1226590	1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap];1.00[ASN][1000 genomes]
rs1226591	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap];1.00[ASN][1000 genomes]
rs1226594	0.83[ASW][hapmap];0.80[CEU][hapmap];0.85[MEX][hapmap];0.91[TSI][hapmap];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1226596	0.82[ASW][hapmap];0.80[CEU][hapmap];0.85[MEX][hapmap];0.91[TSI][hapmap];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1236813	1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap];0.98[ASN][1000 genomes]
rs1628249	1.00[ASN][1000 genomes]
rs1760290	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs17742370	0.89[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs2489364	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2780954	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2780955	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs2780956	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs2780959	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2780960	1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap];1.00[ASN][1000 genomes]
rs2800280	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs2800281	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs2800283	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2800285	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs2800288	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2800289	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2800290	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs57290629	0.95[ASN][1000 genomes]
rs60422299	0.95[ASN][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	nsv893623	chr9:102648036-103405197	Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	51 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:48 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:103261600-103340200	Weak transcription	Left Ventricle	heart
2	chr9:103273600-103337600	Weak transcription	NHDF-Ad	bronchial
3	chr9:103307400-103341800	Strong transcription	HUES48 Cell Line	embryonic stem cell
4	chr9:103307400-103347800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr9:103308000-103340200	Weak transcription	Fetal Muscle Trunk	muscle
6	chr9:103308600-103345400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
7	chr9:103311800-103342400	Weak transcription	Primary hematopoietic stem cells	blood
8	chr9:103313200-103340800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
9	chr9:103317200-103337400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
10	chr9:103318400-103342400	Weak transcription	Brain Anterior Caudate	brain
11	chr9:103318600-103344000	Weak transcription	Brain Cingulate Gyrus	brain
12	chr9:103319800-103336000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
13	chr9:103320000-103336400	Weak transcription	HSMM	muscle
14	chr9:103322400-103340400	Weak transcription	Brain Substantia Nigra	brain
15	chr9:103322600-103341800	Strong transcription	iPS-20b Cell Line	embryonic stem cell
16	chr9:103323000-103340200	Weak transcription	Brain Hippocampus Middle	brain
17	chr9:103323400-103342000	Weak transcription	Brain Angular Gyrus	brain
18	chr9:103323800-103340600	Weak transcription	Brain Inferior Temporal Lobe	brain
19	chr9:103324000-103340200	Weak transcription	Cortex derived primary cultured neurospheres	brain
20	chr9:103324800-103345400	Weak transcription	H9 Cell Line	embryonic stem cell
21	chr9:103325600-103337600	Weak transcription	NHLF	lung
22	chr9:103326400-103337800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
23	chr9:103327800-103349400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
24	chr9:103329600-103360800	Weak transcription	Aorta	Aorta
25	chr9:103329800-103351800	Weak transcription	Ovary	ovary
26	chr9:103330000-103357800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
27	chr9:103330400-103345400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
28	chr9:103330400-103351600	Weak transcription	Fetal Stomach	stomach
29	chr9:103330800-103349400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
30	chr9:103331200-103335800	Weak transcription	Brain Germinal Matrix	brain
31	chr9:103331200-103335800	Weak transcription	Skeletal Muscle Female	skeletal muscle
32	chr9:103331600-103336600	Weak transcription	Fetal Brain Female	brain
33	chr9:103331600-103360200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
34	chr9:103332400-103335600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
35	chr9:103332400-103351600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
36	chr9:103332400-103357600	Weak transcription	Fetal Lung	lung
37	chr9:103333600-103360800	Weak transcription	Fetal Brain Male	brain
38	chr9:103334200-103337600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
39	chr9:103334200-103338200	Weak transcription	Duodenum Smooth Muscle	Duodenum
40	chr9:103334200-103341200	Strong transcription	HUES6 Cell Line	embryonic stem cell
41	chr9:103334200-103351000	Strong transcription	HUES64 Cell Line	embryonic stem cell
42	chr9:103334600-103337400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
43	chr9:103334600-103350600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
44	chr9:103334800-103336800	Weak transcription	Fetal Muscle Leg	muscle
45	chr9:103334800-103350200	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
46	chr9:103335000-103338600	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
47	chr9:103335000-103351000	Strong transcription	iPS-18 Cell Line	embryonic stem cell
48	chr9:103335400-103341400	Strong transcription	H1 Cell Line	embryonic stem cell

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