Variant report

Variant	rs9470867
Chromosome Location	chr6:38358860-38358861
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	chr6:38357729..38359260-chr6:38373840..38376265,2	MCF-7	breast:

Extended variants
information (count: 66 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:57)

rs_ID	r²[population]
rs1983605	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2294739	0.89[EUR][1000 genomes]
rs4140443	1.00[CEU][hapmap];0.94[AFR][1000 genomes];0.98[EUR][1000 genomes]
rs4711538	0.85[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs4711540	0.86[EUR][1000 genomes]
rs4711541	0.85[AFR][1000 genomes];0.97[EUR][1000 genomes]
rs4711543	0.96[AFR][1000 genomes];0.98[EUR][1000 genomes]
rs4711544	1.00[CEU][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.99[EUR][1000 genomes]
rs4711546	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4714151	0.88[EUR][1000 genomes]
rs4714152	1.00[CEU][hapmap];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs4714153	1.00[AFR][1000 genomes];0.99[EUR][1000 genomes]
rs4714155	1.00[CEU][hapmap];0.88[YRI][hapmap];0.99[EUR][1000 genomes]
rs4714156	1.00[CEU][hapmap];0.83[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.99[EUR][1000 genomes]
rs4714157	1.00[CEU][hapmap];0.86[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4714158	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[YRI][hapmap];0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58424668	0.87[EUR][1000 genomes]
rs58807047	0.87[EUR][1000 genomes]
rs6903060	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6903611	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6903767	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6923701	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs742515	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7743023	0.99[EUR][1000 genomes]
rs7748599	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7749685	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7756267	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7759078	1.00[CEU][hapmap];0.83[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.99[EUR][1000 genomes]
rs7759629	1.00[CEU][hapmap];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7764502	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[YRI][hapmap];0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7766214	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9296248	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9296249	1.00[CEU][hapmap];0.98[EUR][1000 genomes]
rs9349076	0.96[EUR][1000 genomes]
rs9349077	0.94[CEU][hapmap];0.96[EUR][1000 genomes]
rs9349078	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9349079	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9357269	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9357270	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9357271	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9357272	1.00[CEU][hapmap];0.86[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9366957	0.84[EUR][1000 genomes]
rs9366959	1.00[AFR][1000 genomes];0.98[EUR][1000 genomes]
rs9366960	0.98[EUR][1000 genomes]
rs9369055	1.00[CEU][hapmap];0.83[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.99[EUR][1000 genomes]
rs9369057	0.94[CEU][hapmap];0.96[EUR][1000 genomes]
rs9380740	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs9380741	1.00[CEU][hapmap];0.83[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.99[EUR][1000 genomes]
rs9380742	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9380743	1.00[CEU][hapmap];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9380745	0.94[CEU][hapmap];0.84[EUR][1000 genomes]
rs9380747	1.00[CEU][hapmap];0.92[CHB][hapmap];0.86[YRI][hapmap];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9394493	1.00[CEU][hapmap];0.96[YRI][hapmap];1.00[AFR][1000 genomes];0.99[EUR][1000 genomes]
rs9394494	1.00[CEU][hapmap];0.83[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.99[EUR][1000 genomes]
rs9470865	0.94[AFR][1000 genomes];0.99[EUR][1000 genomes]
rs9470868	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9470874	0.95[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1021991	chr6:37893949-38738720	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
2	nsv885817	chr6:38036420-39019503	Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Strong transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
3	nsv534620	chr6:38049585-38602064	Enhancers Strong transcription Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
4	nsv885818	chr6:38147745-38436317	Enhancers Weak transcription Strong transcription Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv885820	chr6:38166511-38468887	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
6	nsv602957	chr6:38305770-38395874	Weak transcription Flanking Active TSS Enhancers Strong transcription Bivalent Enhancer Active TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	nsv1032358	chr6:38323745-38415855	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
8	nsv1022724	chr6:38332368-38454527	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Strong transcription Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
9	nsv966638	chr6:38353527-38361086	Weak transcription Enhancers Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:38343000-38367800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr6:38350200-38366200	Weak transcription	Lung	lung
3	chr6:38354000-38376000	Weak transcription	Primary T cells from cord blood	blood
4	chr6:38354800-38370800	Weak transcription	Primary B cells from cord blood	blood
5	chr6:38356400-38359400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
6	chr6:38356400-38359600	Weak transcription	Adipose Nuclei	Adipose
7	chr6:38356600-38359600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
8	chr6:38357600-38359400	Weak transcription	Psoas Muscle	Psoas
9	chr6:38358400-38359800	Enhancers	Skeletal Muscle Male	skeletal muscle
10	chr6:38358400-38360400	Enhancers	Skeletal Muscle Female	skeletal muscle
11	chr6:38358400-38361200	Enhancers	iPS-18 Cell Line	embryonic stem cell
12	chr6:38358600-38360200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
13	chr6:38358600-38360400	Enhancers	HUES48 Cell Line	embryonic stem cell
14	chr6:38358600-38360800	Enhancers	HUES64 Cell Line	embryonic stem cell
15	chr6:38358800-38359000	Enhancers	Primary T helper cells PMA-I stimulated	--
16	chr6:38358800-38359000	Enhancers	HSMM	muscle
17	chr6:38358800-38359400	Enhancers	Muscle Satellite Cultured Cells	--
18	chr6:38358800-38359800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
19	chr6:38358800-38360000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
20	chr6:38358800-38360000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
21	chr6:38358800-38360000	Enhancers	Hela-S3	cervix
22	chr6:38358800-38360200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
23	chr6:38358800-38360400	Enhancers	ES-I3 Cell Line	embryonic stem cell
24	chr6:38358800-38360400	Enhancers	HUES6 Cell Line	embryonic stem cell
25	chr6:38358800-38360400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
26	chr6:38358800-38360400	Enhancers	NHDF-Ad	bronchial
27	chr6:38358800-38360400	Enhancers	NHLF	lung
28	chr6:38358800-38361200	Enhancers	iPS-20b Cell Line	embryonic stem cell
29	chr6:38358800-38362200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
30	chr6:38358800-38362800	Enhancers	HUVEC	blood vessel

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