Variant report

Variant	rs6459404
Chromosome Location	chr6:15281420-15281421
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:15278983..15281973-chr6:15299059..15301860,2	K562	blood:
2	chr6:15275776..15277697-chr6:15279697..15282861,3	K562	blood:
3	chr6:15273950..15277864-chr6:15279657..15281867,3	MCF-7	breast:

Extended variants
information (count: 15 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs13208655	1.00[CEU][hapmap];0.95[CHB][hapmap];0.90[JPT][hapmap];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1322753	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];0.88[MEX][hapmap];0.80[MKK][hapmap];1.00[TSI][hapmap];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1885673	1.00[CEU][hapmap];0.95[CHB][hapmap];0.90[JPT][hapmap];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2327883	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6921502	0.93[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];0.90[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6941986	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7766973	0.86[ASW][hapmap]
rs9464782	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1027010	chr6:15201803-15425629	Flanking Active TSS Enhancers Weak transcription Active TSS Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
2	nsv538140	chr6:15217899-15547127	Enhancers Weak transcription Strong transcription Bivalent Enhancer Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
3	nsv1030558	chr6:15234675-15449137	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
4	nsv538141	chr6:15234675-15509163	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
5	nsv538142	chr6:15243960-15404893	Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
6	nsv601006	chr6:15275305-15300590	Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription ZNF genes & repeats Active TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
7	nsv949448	chr6:15279490-15449441	Weak transcription Flanking Active TSS Enhancers Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:114 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:15261000-15283800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
2	chr6:15269200-15290000	Weak transcription	NHLF	lung
3	chr6:15270000-15285400	Weak transcription	Thymus	Thymus
4	chr6:15270200-15281600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
5	chr6:15270200-15288800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
6	chr6:15275000-15282600	Enhancers	Primary B cells from peripheral blood	blood
7	chr6:15275400-15286000	Weak transcription	HSMM	muscle
8	chr6:15275400-15287800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
9	chr6:15275600-15285000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
10	chr6:15276200-15281600	Weak transcription	Fetal Heart	heart
11	chr6:15276200-15282600	Enhancers	Primary T helper cells fromperipheralblood	blood
12	chr6:15276600-15282000	Enhancers	Primary monocytes fromperipheralblood	blood
13	chr6:15276800-15287800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr6:15276800-15293200	Weak transcription	Brain Inferior Temporal Lobe	brain
15	chr6:15277200-15285200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
16	chr6:15277200-15289200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr6:15277200-15294000	Weak transcription	Fetal Muscle Leg	muscle
18	chr6:15278800-15281800	Enhancers	iPS-18 Cell Line	embryonic stem cell
19	chr6:15278800-15282000	Enhancers	Skeletal Muscle Female	skeletal muscle
20	chr6:15278800-15282400	Enhancers	Primary T helper cells PMA-I stimulated	--
21	chr6:15278800-15282400	Enhancers	Skeletal Muscle Male	skeletal muscle
22	chr6:15279000-15282400	Enhancers	Fetal Intestine Small	intestine
23	chr6:15279000-15282600	Enhancers	Primary hematopoietic stem cells short term culture	blood
24	chr6:15279200-15281800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
25	chr6:15279200-15281800	Enhancers	Adipose Nuclei	Adipose
26	chr6:15279200-15282000	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
27	chr6:15279200-15282000	Enhancers	Brain Germinal Matrix	brain
28	chr6:15279200-15282200	Enhancers	iPS-15b Cell Line	embryonic stem cell
29	chr6:15279200-15282400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
30	chr6:15279400-15281600	Enhancers	iPS-20b Cell Line	embryonic stem cell
31	chr6:15279400-15281600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
32	chr6:15279400-15281600	Enhancers	Osteobl	bone
33	chr6:15279400-15281800	Enhancers	Cortex derived primary cultured neurospheres	brain
34	chr6:15279400-15282200	Enhancers	HUES64 Cell Line	embryonic stem cell
35	chr6:15279400-15282600	Enhancers	Primary hematopoietic stem cells	blood
36	chr6:15279600-15281600	Enhancers	ES-WA7 Cell Line	embryonic stem cell
37	chr6:15279600-15281600	Enhancers	Duodenum Smooth Muscle	Duodenum
38	chr6:15279600-15281800	Enhancers	Primary T helper naive cells fromperipheralblood	blood
39	chr6:15279600-15281800	Enhancers	Colon Smooth Muscle	Colon
40	chr6:15279600-15282000	Enhancers	ES-I3 Cell Line	embryonic stem cell
41	chr6:15279600-15282000	Enhancers	Rectal Smooth Muscle	rectum
42	chr6:15279600-15282200	Enhancers	Breast Myoepithelial Primary Cells	Breast
43	chr6:15279600-15282200	Enhancers	Rectal Mucosa Donor 31	rectum
44	chr6:15279600-15282400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
45	chr6:15279600-15282600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
46	chr6:15279600-15282600	Enhancers	Fetal Lung	lung
47	chr6:15279800-15282000	Enhancers	Rectal Mucosa Donor 29	rectum
48	chr6:15279800-15282200	Enhancers	Primary T helper naive cells from peripheral blood	blood
49	chr6:15279800-15282800	Enhancers	Fetal Kidney	kidney
50	chr6:15279800-15284800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell

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