Variant report

Variant	rs16876361
Chromosome Location	chr6:15447134-15447135
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:15244896..15247781-chr6:15446382..15448441,2	MCF-7	breast:
2	chr6:15446921..15448738-chr6:15452491..15454200,2	MCF-7	breast:
3	chr6:15446478..15449209-chr6:15454925..15456777,2	K562	blood:
4	chr6:15445585..15449236-chr6:15452197..15455366,5	MCF-7	breast:
5	chr6:15445515..15448315-chr6:15457495..15459550,2	MCF-7	breast:
6	chr6:15443726..15445264-chr6:15445305..15447149,2	MCF-7	breast:
7	chr6:15443507..15446694-chr6:15446706..15448980,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000271888	Chromatin interaction
ENSG00000008083	Chromatin interaction

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs10484354	1.00[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11961516	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11961748	1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11961827	1.00[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11963285	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11964758	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11965505	1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11969359	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16876316	1.00[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16876327	1.00[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs35438327	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs35801290	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60535196	0.93[AFR][1000 genomes]
rs6905116	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73365205	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73365221	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73365227	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73365229	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73365234	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73367315	1.00[AMR][1000 genomes]
rs7743283	1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7748631	0.85[YRI][hapmap]
rs7757154	1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7767966	0.87[YRI][hapmap]
rs7769123	0.93[AFR][1000 genomes];1.00[AMR][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	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
2	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
3	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
4	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
5	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
6	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
7	esv3430547	chr6:15444773-15448671	Enhancers Weak transcription Genic enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Active TSS	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:119 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:15417000-15452200	Enhancers	iPS-15b Cell Line	embryonic stem cell
2	chr6:15427000-15450800	Enhancers	HUES6 Cell Line	embryonic stem cell
3	chr6:15435000-15448000	Weak transcription	Rectal Smooth Muscle	rectum
4	chr6:15435800-15453600	Weak transcription	Fetal Intestine Small	intestine
5	chr6:15435800-15487600	Weak transcription	Colonic Mucosa	Colon
6	chr6:15439000-15458000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
7	chr6:15439200-15450200	Enhancers	Skeletal Muscle Male	skeletal muscle
8	chr6:15439600-15448200	Enhancers	Skeletal Muscle Female	skeletal muscle
9	chr6:15440000-15449400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
10	chr6:15440000-15468600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
11	chr6:15440600-15448200	Weak transcription	Thymus	Thymus
12	chr6:15440600-15454800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
13	chr6:15441600-15451800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
14	chr6:15441600-15452200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
15	chr6:15441600-15452200	Weak transcription	Dnd41	blood
16	chr6:15441600-15453600	Weak transcription	HSMM	muscle
17	chr6:15441800-15448000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
18	chr6:15441800-15449400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
19	chr6:15442200-15451400	Enhancers	HUES48 Cell Line	embryonic stem cell
20	chr6:15442600-15449600	Enhancers	H1 Cell Line	embryonic stem cell
21	chr6:15442800-15448200	Enhancers	H9 Cell Line	embryonic stem cell
22	chr6:15443400-15447800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr6:15443600-15449600	Enhancers	iPS-20b Cell Line	embryonic stem cell
24	chr6:15443600-15451600	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
25	chr6:15443600-15452000	Weak transcription	K562	blood
26	chr6:15443800-15449200	Weak transcription	HUVEC	blood vessel
27	chr6:15444000-15448800	Weak transcription	NHEK	skin
28	chr6:15444200-15449600	Weak transcription	NHDF-Ad	bronchial
29	chr6:15444400-15447200	Enhancers	Brain Cingulate Gyrus	brain
30	chr6:15444400-15452200	Weak transcription	Primary neutrophils fromperipheralblood	blood
31	chr6:15444400-15453600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
32	chr6:15444600-15447800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
33	chr6:15444600-15448200	Enhancers	Pancreas	Pancrea
34	chr6:15444600-15451400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
35	chr6:15444600-15452600	Weak transcription	Duodenum Mucosa	Duodenum
36	chr6:15444600-15477400	Weak transcription	Hela-S3	cervix
37	chr6:15444800-15448000	Weak transcription	Fetal Intestine Large	intestine
38	chr6:15444800-15448000	Weak transcription	Monocytes-CD14+_RO01746	blood
39	chr6:15444800-15448200	Weak transcription	Colon Smooth Muscle	Colon
40	chr6:15444800-15449000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
41	chr6:15444800-15450200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
42	chr6:15444800-15451600	Weak transcription	GM12878-XiMat	blood
43	chr6:15444800-15452200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
44	chr6:15444800-15452200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
45	chr6:15444800-15457200	Weak transcription	Fetal Heart	heart
46	chr6:15444800-15468800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
47	chr6:15445400-15447600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
48	chr6:15445400-15447800	Weak transcription	Primary monocytes fromperipheralblood	blood
49	chr6:15445400-15448000	Weak transcription	Rectal Mucosa Donor 31	rectum
50	chr6:15445400-15448400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived

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