Variant report

Variant	rs1676017
Chromosome Location	chr6:107002439-107002440
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:107002175..107004858-chr6:107006696..107008567,2	MCF-7	breast:

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs1676009	0.85[AMR][1000 genomes]
rs1676011	0.81[LWK][hapmap];1.00[MEX][hapmap];0.90[MKK][hapmap];0.89[YRI][hapmap];0.85[AMR][1000 genomes]
rs1676012	0.85[AMR][1000 genomes]
rs1676014	1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs1676015	1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs1770727	0.81[LWK][hapmap];1.00[MEX][hapmap];0.88[MKK][hapmap];0.89[YRI][hapmap];0.85[AMR][1000 genomes]
rs1770729	1.00[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs1770730	1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs1981308	0.87[AFR][1000 genomes];0.93[AMR][1000 genomes]
rs2353041	1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4946767	0.82[MEX][hapmap]
rs4946769	0.93[ASW][hapmap];0.97[LWK][hapmap];0.96[MKK][hapmap];0.94[YRI][hapmap];0.94[AFR][1000 genomes]
rs4946771	0.94[YRI][hapmap];0.93[AFR][1000 genomes]
rs4946772	0.88[AFR][1000 genomes]
rs4946773	0.94[YRI][hapmap]
rs6568446	0.94[YRI][hapmap];0.90[AFR][1000 genomes]
rs6914497	0.94[YRI][hapmap];0.86[AFR][1000 genomes]
rs6936524	0.82[MEX][hapmap]
rs6938201	0.94[YRI][hapmap]
rs7749873	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7759505	0.82[MEX][hapmap]
rs9372137	0.86[AFR][1000 genomes]
rs9373878	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9373881	0.90[AFR][1000 genomes]
rs963683	0.94[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs968839	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv932155	chr6:106281728-107030467	Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Bivalent/Poised TSS Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
2	nsv532047	chr6:106591482-107143252	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
3	nsv870375	chr6:106696090-107047892	Weak transcription Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	31 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:87 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:106964800-107029800	Weak transcription	Small Intestine	intestine
2	chr6:106970600-107022400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr6:106985800-107019200	Weak transcription	Aorta	Aorta
4	chr6:106994000-107017800	Weak transcription	Skeletal Muscle Female	skeletal muscle
5	chr6:106994200-107009000	Weak transcription	Left Ventricle	heart
6	chr6:106994200-107019400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
7	chr6:106994200-107019600	Strong transcription	Primary T cells fromperipheralblood	blood
8	chr6:106994800-107004200	Strong transcription	Primary T cells from cord blood	blood
9	chr6:106994800-107004600	Strong transcription	Rectal Mucosa Donor 29	rectum
10	chr6:106994800-107004600	Weak transcription	Hela-S3	cervix
11	chr6:106995000-107019400	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
12	chr6:106995200-107016200	Weak transcription	Duodenum Smooth Muscle	Duodenum
13	chr6:106995200-107018800	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
14	chr6:106995800-107003800	Strong transcription	Primary T helper cells fromperipheralblood	blood
15	chr6:106995800-107004400	Strong transcription	Rectal Mucosa Donor 31	rectum
16	chr6:106996000-107003400	Weak transcription	Colonic Mucosa	Colon
17	chr6:106996200-107017200	Weak transcription	HSMM	muscle
18	chr6:106996200-107018400	Weak transcription	Fetal Stomach	stomach
19	chr6:106996200-107022400	Weak transcription	Ovary	ovary
20	chr6:106996200-107023000	Weak transcription	Stomach Mucosa	stomach
21	chr6:106996400-107005600	Weak transcription	Osteobl	bone
22	chr6:106996400-107009000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
23	chr6:106996400-107012200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
24	chr6:106996400-107027000	Strong transcription	Primary B cells from peripheral blood	blood
25	chr6:106996400-107030800	Weak transcription	HUES6 Cell Line	embryonic stem cell
26	chr6:106996400-107074000	Weak transcription	Fetal Kidney	kidney
27	chr6:106996600-107009200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
28	chr6:106996600-107009600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
29	chr6:106996600-107012000	Weak transcription	H1 Cell Line	embryonic stem cell
30	chr6:106996600-107018400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
31	chr6:106996600-107022400	Weak transcription	HUVEC	blood vessel
32	chr6:106997600-107002800	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
33	chr6:106997800-107008400	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
34	chr6:106998000-107004000	Strong transcription	NHEK	skin
35	chr6:106998000-107005600	Strong transcription	HMEC	breast
36	chr6:106998000-107007000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
37	chr6:106998200-107003800	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
38	chr6:106998200-107005600	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
39	chr6:106999000-107022400	Weak transcription	Right Ventricle	heart
40	chr6:106999200-107022400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
41	chr6:106999400-107004000	Strong transcription	Primary monocytes fromperipheralblood	blood
42	chr6:106999600-107004000	Strong transcription	Monocytes-CD14+_RO01746	blood
43	chr6:106999600-107005600	Strong transcription	Primary neutrophils fromperipheralblood	blood
44	chr6:106999800-107030600	Weak transcription	H9 Cell Line	embryonic stem cell
45	chr6:107000200-107004000	Strong transcription	Esophagus	oesophagus
46	chr6:107000200-107004200	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
47	chr6:107000400-107004800	Strong transcription	Dnd41	blood
48	chr6:107000400-107018800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
49	chr6:107000600-107003000	Strong transcription	Duodenum Mucosa	Duodenum
50	chr6:107000800-107002800	Strong transcription	Primary hematopoietic stem cells	blood

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