Variant report

Variant	rs9450640
Chromosome Location	chr6:87949102-87949103
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:87947826..87949359-chr6:87951504..87953481,2	MCF-7	breast:

Extended variants
information (count: 67 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:65)

rs_ID	r²[population]
rs1145713	0.93[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1145714	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1145715	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1145716	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11759727	0.92[AMR][1000 genomes];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1188806	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1203162	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1203163	0.81[ASN][1000 genomes]
rs1203164	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs13201289	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs16878497	0.83[EUR][1000 genomes]
rs1746444	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs1753152	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs1925686	0.84[EUR][1000 genomes]
rs2236048	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs242274	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs242275	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs242276	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs242282	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2983136	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs368267	0.93[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs374792	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs382956	0.89[AMR][1000 genomes];0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs384318	0.93[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs385210	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs3857486	0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3999791	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs411606	0.93[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs413687	0.93[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs414453	0.93[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4235830	0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4707344	0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4707345	0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4707355	0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs62439540	0.81[EUR][1000 genomes]
rs6908834	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6913159	0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6921673	0.83[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs6926686	0.96[AMR][1000 genomes];0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6932641	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6938885	0.96[AMR][1000 genomes];0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6939075	0.96[AMR][1000 genomes];0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6940325	0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7752414	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7757330	0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7758360	0.88[ASN][1000 genomes]
rs827433	0.85[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs912815	0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9294375	0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9294376	0.96[AMR][1000 genomes];0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9444476	0.82[EUR][1000 genomes]
rs9444481	0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9444486	0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9444488	0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9444490	0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9444491	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9450623	0.83[EUR][1000 genomes]
rs9450630	0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9450636	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9450637	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9450638	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9450639	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9450646	0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9450651	0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9450653	0.96[AMR][1000 genomes];0.88[EUR][1000 genomes];0.82[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	esv2758067	chr6:87817883-87992957	Enhancers Bivalent Enhancer ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	esv2759453	chr6:87817883-87992957	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:117 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:87884000-87964400	Weak transcription	NHEK	skin
2	chr6:87888200-87964200	Weak transcription	HSMMtube	muscle
3	chr6:87891000-87956000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
4	chr6:87905200-87950200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
5	chr6:87906200-87956200	Weak transcription	A549	lung
6	chr6:87906400-87964400	Weak transcription	NHLF	lung
7	chr6:87910600-87956000	Weak transcription	Skeletal Muscle Male	skeletal muscle
8	chr6:87922200-87956200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
9	chr6:87923200-87953600	Weak transcription	Stomach Mucosa	stomach
10	chr6:87923200-87956000	Weak transcription	Brain Hippocampus Middle	brain
11	chr6:87923400-87955600	Weak transcription	Sigmoid Colon	Sigmoid Colon
12	chr6:87923400-87956200	Weak transcription	Gastric	stomach
13	chr6:87923400-87956200	Weak transcription	Small Intestine	intestine
14	chr6:87923400-87969000	Weak transcription	Psoas Muscle	Psoas
15	chr6:87924000-87956200	Weak transcription	Brain Cingulate Gyrus	brain
16	chr6:87924400-87966000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
17	chr6:87924600-87956200	Weak transcription	Right Ventricle	heart
18	chr6:87928000-87956200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
19	chr6:87930600-87954000	Weak transcription	HMEC	breast
20	chr6:87931200-87952400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
21	chr6:87933200-87956200	Weak transcription	Brain Inferior Temporal Lobe	brain
22	chr6:87933400-87950200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
23	chr6:87933600-87949600	Weak transcription	Fetal Stomach	stomach
24	chr6:87933600-87951200	Weak transcription	Pancreas	Pancrea
25	chr6:87933600-87956200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
26	chr6:87933600-87956200	Weak transcription	Lung	lung
27	chr6:87933600-87956400	Weak transcription	Esophagus	oesophagus
28	chr6:87933800-87956200	Weak transcription	H9 Cell Line	embryonic stem cell
29	chr6:87933800-87956200	Weak transcription	Colonic Mucosa	Colon
30	chr6:87934000-87956200	Weak transcription	Left Ventricle	heart
31	chr6:87934000-87956400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
32	chr6:87934200-87954600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
33	chr6:87934400-87953400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
34	chr6:87934400-87955600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
35	chr6:87934600-87953600	Weak transcription	Colon Smooth Muscle	Colon
36	chr6:87934600-87964200	Weak transcription	Rectal Smooth Muscle	rectum
37	chr6:87934600-87964400	Weak transcription	Brain Angular Gyrus	brain
38	chr6:87934600-87967000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
39	chr6:87934800-87953600	Weak transcription	Brain Substantia Nigra	brain
40	chr6:87934800-87954800	Weak transcription	NH-A	brain
41	chr6:87934800-87956000	Weak transcription	Stomach Smooth Muscle	stomach
42	chr6:87934800-87956200	Weak transcription	Brain Anterior Caudate	brain
43	chr6:87934800-87956400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
44	chr6:87934800-87958600	Weak transcription	Placenta Amnion	Placenta Amnion
45	chr6:87934800-87964200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
46	chr6:87935000-87952000	Weak transcription	Skeletal Muscle Female	skeletal muscle
47	chr6:87935000-87956200	Weak transcription	HUVEC	blood vessel
48	chr6:87935200-87963400	Weak transcription	Hela-S3	cervix
49	chr6:87935200-87963600	Weak transcription	NHDF-Ad	bronchial
50	chr6:87935800-87956800	Weak transcription	Osteobl	bone

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