Variant report

Variant	rs9470833
Chromosome Location	chr6:38207303-38207304
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	chr6:38206376..38209309-chr6:38213456..38216223,2	MCF-7	breast:

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs1475761	0.85[YRI][hapmap]
rs1931762	1.00[CHB][hapmap]
rs1931765	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1931766	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2050161	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2395695	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4299828	0.88[CEU][hapmap];0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4711527	0.94[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs4714128	0.93[CEU][hapmap];1.00[CHB][hapmap];0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4714129	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4714130	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs4714131	0.94[CEU][hapmap];0.84[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs4714132	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4714133	0.83[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4714136	0.92[YRI][hapmap];0.84[AFR][1000 genomes]
rs6458045	0.83[CEU][hapmap]
rs6458047	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs66634926	0.87[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs6904507	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6915783	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6917654	0.94[CEU][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6924088	0.89[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6930118	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6935617	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs726160	1.00[JPT][hapmap]
rs7738411	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs873316	1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs9380722	0.81[EUR][1000 genomes]
rs9380724	0.94[CEU][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9462416	1.00[JPT][hapmap]
rs9470847	0.92[YRI][hapmap]
rs9470848	0.92[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1028825	chr6:37495154-38278320	Enhancers Active TSS Weak transcription Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
2	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
3	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
4	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
5	nsv522522	chr6:38131442-38207636	Enhancers Strong transcription Weak transcription Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	1 gene(s)	inside rSNPs	diseases
6	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
7	nsv520053	chr6:38154941-38207636	Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
8	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

No data

Chromatin state (count:32 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:38167000-38210400	Weak transcription	Primary T cells from cord blood	blood
2	chr6:38178000-38221600	Weak transcription	Primary T cells fromperipheralblood	blood
3	chr6:38178000-38221800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
4	chr6:38181000-38207600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr6:38181400-38229400	Weak transcription	Fetal Intestine Small	intestine
6	chr6:38186600-38215200	Weak transcription	Aorta	Aorta
7	chr6:38194400-38230200	Weak transcription	Sigmoid Colon	Sigmoid Colon
8	chr6:38200000-38207600	Weak transcription	Lung	lung
9	chr6:38202200-38207400	Weak transcription	Stomach Mucosa	stomach
10	chr6:38202200-38207600	Weak transcription	Gastric	stomach
11	chr6:38203400-38207800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
12	chr6:38203400-38212800	Weak transcription	Skeletal Muscle Male	skeletal muscle
13	chr6:38203800-38207600	Weak transcription	Primary B cells from peripheral blood	blood
14	chr6:38203800-38207800	Weak transcription	Psoas Muscle	Psoas
15	chr6:38203800-38207800	Weak transcription	Skeletal Muscle Female	skeletal muscle
16	chr6:38203800-38208000	Weak transcription	HUES64 Cell Line	embryonic stem cell
17	chr6:38204000-38207800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
18	chr6:38204000-38208800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
19	chr6:38204200-38215200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
20	chr6:38204800-38229400	Weak transcription	Rectal Smooth Muscle	rectum
21	chr6:38205000-38207600	Weak transcription	HUES6 Cell Line	embryonic stem cell
22	chr6:38205200-38207600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
23	chr6:38205200-38207800	Weak transcription	Cortex derived primary cultured neurospheres	brain
24	chr6:38205200-38211000	Weak transcription	Pancreatic Islets	Pancreatic Islet
25	chr6:38205200-38216200	Weak transcription	HUES48 Cell Line	embryonic stem cell
26	chr6:38205200-38228800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
27	chr6:38205400-38207600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
28	chr6:38206200-38207600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
29	chr6:38207200-38207600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
30	chr6:38207200-38208000	Enhancers	GM12878-XiMat	blood
31	chr6:38207200-38208200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
32	chr6:38207200-38209600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

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