Variant report

Variant	rs9480531
Chromosome Location	chr6:151008498-151008499
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	chr6:151002149..151004353-chr6:151006799..151008917,2	MCF-7	breast:
2	chr6:151007139..151009866-chr6:151010268..151011885,2	MCF-7	breast:

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs10872666	0.95[MEX][hapmap];0.84[AMR][1000 genomes]
rs12664686	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs17080073	1.00[CEU][hapmap];0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs17080108	1.00[CEU][hapmap];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2345745	0.93[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4036092	0.95[AFR][1000 genomes];0.91[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4869926	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4869927	1.00[CEU][hapmap];0.94[GIH][hapmap];0.95[TSI][hapmap];0.87[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs4869928	0.81[CEU][hapmap];0.87[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs4869929	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4869930	0.93[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4869931	1.00[ASW][hapmap];0.93[CEU][hapmap];0.86[CHB][hapmap];0.91[CHD][hapmap];0.94[JPT][hapmap];0.93[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.90[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs55646755	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58824807	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs59155780	0.91[AFR][1000 genomes]
rs59466561	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6899782	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs6908127	1.00[CEU][hapmap];0.94[GIH][hapmap];0.85[MEX][hapmap];1.00[TSI][hapmap];0.87[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs6921304	0.90[MEX][hapmap]
rs6929743	0.93[CEU][hapmap];0.86[CHB][hapmap];0.82[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs73010188	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7738394	0.83[ASW][hapmap];0.86[LWK][hapmap];0.93[MKK][hapmap];0.96[YRI][hapmap];0.94[AFR][1000 genomes]
rs7749222	0.83[ASW][hapmap];0.84[LWK][hapmap];0.90[MKK][hapmap];0.96[YRI][hapmap];0.94[AFR][1000 genomes]
rs9478775	1.00[CEU][hapmap];0.82[TSI][hapmap];0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9478780	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9478783	1.00[ASW][hapmap];0.92[CEU][hapmap];0.86[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.90[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9480514	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9480526	1.00[CEU][hapmap];0.94[GIH][hapmap];0.85[MEX][hapmap];1.00[TSI][hapmap];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9480528	1.00[CEU][hapmap];0.92[GIH][hapmap];0.85[MEX][hapmap];1.00[TSI][hapmap];0.87[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs9480529	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9480530	1.00[CEU][hapmap];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs9480533	0.86[CEU][hapmap];0.86[CHB][hapmap];0.84[AFR][1000 genomes];0.97[AMR][1000 genomes];0.88[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs9885650	0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9885699	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9885836	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv886772	chr6:150743364-151024280	Enhancers Active TSS Weak transcription Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv1030326	chr6:150967665-151641372	Strong transcription Weak transcription Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:47 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:150980600-151008800	Weak transcription	Gastric	stomach
2	chr6:150980800-151014800	Weak transcription	Pancreas	Pancrea
3	chr6:150990600-151008800	Weak transcription	Rectal Smooth Muscle	rectum
4	chr6:150990600-151016600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
5	chr6:150990800-151011800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr6:150995000-151008800	Weak transcription	Duodenum Smooth Muscle	Duodenum
7	chr6:150995400-151008800	Weak transcription	Small Intestine	intestine
8	chr6:151000800-151010000	Enhancers	Primary B cells from peripheral blood	blood
9	chr6:151003600-151011400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr6:151003800-151015000	Weak transcription	Brain Substantia Nigra	brain
11	chr6:151004800-151012000	Weak transcription	Primary monocytes fromperipheralblood	blood
12	chr6:151005000-151017400	Weak transcription	Aorta	Aorta
13	chr6:151005800-151018400	Weak transcription	Psoas Muscle	Psoas
14	chr6:151006000-151018400	Weak transcription	Skeletal Muscle Male	skeletal muscle
15	chr6:151006600-151011400	Enhancers	Primary B cells from cord blood	blood
16	chr6:151006600-151011800	Weak transcription	Primary hematopoietic stem cells	blood
17	chr6:151006600-151011800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
18	chr6:151006600-151014600	Weak transcription	Right Atrium	heart
19	chr6:151006800-151008800	Weak transcription	Rectal Mucosa Donor 29	rectum
20	chr6:151006800-151008800	Weak transcription	Sigmoid Colon	Sigmoid Colon
21	chr6:151006800-151017200	Weak transcription	Fetal Stomach	stomach
22	chr6:151007000-151009400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
23	chr6:151007200-151011200	Weak transcription	GM12878-XiMat	blood
24	chr6:151007400-151014800	Weak transcription	Thymus	Thymus
25	chr6:151007600-151008600	Weak transcription	Fetal Kidney	kidney
26	chr6:151007600-151008800	Weak transcription	Fetal Muscle Trunk	muscle
27	chr6:151007600-151009800	Enhancers	Fetal Muscle Leg	muscle
28	chr6:151007800-151008800	Enhancers	Lung	lung
29	chr6:151007800-151009000	Enhancers	Ovary	ovary
30	chr6:151008000-151008600	Active TSS	Placenta	Placenta
31	chr6:151008000-151009400	Enhancers	Fetal Intestine Large	intestine
32	chr6:151008000-151009800	Enhancers	Stomach Mucosa	stomach
33	chr6:151008000-151011400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
34	chr6:151008000-151011400	Weak transcription	Left Ventricle	heart
35	chr6:151008000-151012200	Enhancers	HUVEC	blood vessel
36	chr6:151008200-151008600	Enhancers	Breast Myoepithelial Primary Cells	Breast
37	chr6:151008200-151008600	Enhancers	Esophagus	oesophagus
38	chr6:151008200-151008600	Weak transcription	Fetal Thymus	thymus
39	chr6:151008200-151009400	Enhancers	Fetal Lung	lung
40	chr6:151008200-151009600	Enhancers	Adipose Nuclei	Adipose
41	chr6:151008200-151009800	Enhancers	Rectal Mucosa Donor 31	rectum
42	chr6:151008200-151011400	Weak transcription	Spleen	Spleen
43	chr6:151008400-151008800	Enhancers	Liver	Liver
44	chr6:151008400-151009400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
45	chr6:151008400-151009400	Enhancers	Duodenum Mucosa	Duodenum
46	chr6:151008400-151009400	Enhancers	Fetal Intestine Small	intestine
47	chr6:151008400-151012200	Weak transcription	Colon Smooth Muscle	Colon

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links