Variant report

Variant	rs10484355
Chromosome Location	chr6:15394340-15394341
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:15390639..15392366-chr6:15393786..15395577,2	MCF-7	breast:
2	chr6:15088305..15090706-chr6:15391905..15394857,2	K562	blood:
3	chr6:15384574..15387148-chr6:15391772..15394376,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000234261	Chromatin interaction

Extended variants
information (count: 53 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs10949294	0.82[JPT][hapmap];0.81[ASN][1000 genomes]
rs10949295	0.82[JPT][hapmap];0.81[ASN][1000 genomes]
rs11756544	0.82[JPT][hapmap];0.97[ASN][1000 genomes]
rs11757415	0.82[JPT][hapmap];0.97[ASN][1000 genomes]
rs12204124	1.00[CHB][hapmap]
rs12211278	0.82[JPT][hapmap];0.81[ASN][1000 genomes]
rs12215740	1.00[CHB][hapmap]
rs13192347	0.89[CEU][hapmap];0.82[JPT][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13194410	0.89[CEU][hapmap];0.82[JPT][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs13195950	1.00[YRI][hapmap];0.97[ASN][1000 genomes]
rs13205396	1.00[CEU][hapmap];0.82[JPT][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13205612	1.00[CEU][hapmap];0.82[JPT][hapmap];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13208486	1.00[CEU][hapmap];0.82[JPT][hapmap];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13214720	0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs16876278	0.82[JPT][hapmap];0.81[ASN][1000 genomes]
rs16876354	1.00[CEU][hapmap];0.82[JPT][hapmap];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17468929	0.88[CEU][hapmap]
rs17576233	1.00[CEU][hapmap];0.82[JPT][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17576436	0.88[CEU][hapmap];0.82[JPT][hapmap];0.88[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17576710	1.00[CEU][hapmap];0.82[JPT][hapmap];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17637773	0.82[JPT][hapmap];0.81[ASN][1000 genomes]
rs17638192	0.89[CEU][hapmap];0.82[JPT][hapmap];1.00[YRI][hapmap];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17638720	0.88[CEU][hapmap];0.82[JPT][hapmap];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2237146	1.00[CEU][hapmap];0.82[JPT][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2299051	1.00[CEU][hapmap];0.82[JPT][hapmap];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2299057	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs34002211	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs34764533	0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs35047303	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs35139070	1.00[AFR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35364784	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs35629999	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35734069	0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35918625	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs56123857	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs56265026	0.81[ASN][1000 genomes]
rs61296041	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs66478504	0.88[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6941859	0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs72836327	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs742102	0.82[JPT][hapmap]
rs7747437	1.00[CEU][hapmap];0.82[JPT][hapmap];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7767966	0.89[CEU][hapmap];0.82[JPT][hapmap];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 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	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
7	nsv1025512	chr6:15291551-15452395	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
8	nsv538143	chr6:15291551-15452395	Weak transcription Enhancers Genic enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
9	nsv1019927	chr6:15351240-15419257	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
10	nsv538145	chr6:15351240-15419257	Enhancers Weak transcription Genic enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:84 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:15365000-15402800	Weak transcription	Dnd41	blood
2	chr6:15385200-15398400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
3	chr6:15387800-15399200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr6:15388000-15399200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
5	chr6:15389800-15397600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
6	chr6:15390200-15397400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
7	chr6:15390600-15397200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
8	chr6:15390600-15397600	Weak transcription	Primary T helper cells fromperipheralblood	blood
9	chr6:15390600-15399800	Weak transcription	Muscle Satellite Cultured Cells	--
10	chr6:15390800-15398000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
11	chr6:15390800-15399000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
12	chr6:15390800-15399200	Weak transcription	Rectal Mucosa Donor 29	rectum
13	chr6:15390800-15399200	Weak transcription	Sigmoid Colon	Sigmoid Colon
14	chr6:15390800-15399200	Weak transcription	A549	lung
15	chr6:15390800-15399400	Weak transcription	Rectal Mucosa Donor 31	rectum
16	chr6:15390800-15400000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
17	chr6:15390800-15400200	Weak transcription	Aorta	Aorta
18	chr6:15391000-15394400	Weak transcription	Fetal Intestine Small	intestine
19	chr6:15391000-15396000	Weak transcription	Liver	Liver
20	chr6:15391000-15396800	Weak transcription	Small Intestine	intestine
21	chr6:15391000-15399000	Weak transcription	Primary neutrophils fromperipheralblood	blood
22	chr6:15391000-15399000	Weak transcription	Duodenum Mucosa	Duodenum
23	chr6:15391000-15399200	Weak transcription	HepG2	liver
24	chr6:15391000-15400000	Weak transcription	Thymus	Thymus
25	chr6:15391600-15400200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
26	chr6:15391800-15397600	Weak transcription	K562	blood
27	chr6:15391800-15398400	Weak transcription	Monocytes-CD14+_RO01746	blood
28	chr6:15391800-15398800	Weak transcription	Colon Smooth Muscle	Colon
29	chr6:15391800-15399200	Weak transcription	Stomach Mucosa	stomach
30	chr6:15391800-15400200	Weak transcription	Fetal Muscle Trunk	muscle
31	chr6:15392000-15400200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
32	chr6:15392200-15394800	Weak transcription	HUES48 Cell Line	embryonic stem cell
33	chr6:15392200-15398000	Weak transcription	Brain Angular Gyrus	brain
34	chr6:15392200-15398400	Weak transcription	Primary monocytes fromperipheralblood	blood
35	chr6:15392200-15398800	Weak transcription	Adipose Nuclei	Adipose
36	chr6:15392200-15399000	Weak transcription	Primary T cells fromperipheralblood	blood
37	chr6:15392200-15399200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
38	chr6:15392200-15399200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
39	chr6:15392200-15400000	Weak transcription	NHLF	lung
40	chr6:15392400-15397000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
41	chr6:15392400-15399000	Weak transcription	NHEK	skin
42	chr6:15392400-15399200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
43	chr6:15392400-15400000	Weak transcription	HMEC	breast
44	chr6:15392600-15397600	Weak transcription	Primary T helper cells PMA-I stimulated	--
45	chr6:15392800-15394400	Weak transcription	Fetal Thymus	thymus
46	chr6:15392800-15396000	Weak transcription	H9 Cell Line	embryonic stem cell
47	chr6:15392800-15396200	Weak transcription	HUES64 Cell Line	embryonic stem cell
48	chr6:15392800-15397200	Weak transcription	GM12878-XiMat	blood
49	chr6:15392800-15397600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
50	chr6:15392800-15397600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood

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