Variant report

Variant	rs10947026
Chromosome Location	chr6:11210334-11210335
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:11206157..11210739-chr6:11227507..11231085,4	MCF-7	breast:
2	chr6:11209766..11214077-chr6:11214391..11221251,7	K562	blood:
3	chr6:11209074..11211031-chr6:11228787..11231392,2	MCF-7	breast:
4	chr6:11207669..11210620-chr6:11314180..11315786,2	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]
rs10484448	0.86[MEX][hapmap]
rs10807059	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10947017	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10947020	0.92[AFR][1000 genomes];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10947021	0.93[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.97[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10947036	0.80[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs10947037	0.80[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs12190771	0.94[CEU][hapmap];1.00[CHB][hapmap];0.84[EUR][1000 genomes]
rs12190858	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12200095	0.80[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs12200932	0.86[MEX][hapmap]
rs12205037	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12215094	0.89[CEU][hapmap];0.94[GIH][hapmap];0.96[TSI][hapmap];0.91[EUR][1000 genomes]
rs12215491	0.89[CEU][hapmap];1.00[CHB][hapmap];0.80[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs17496632	1.00[JPT][hapmap]
rs2034	0.91[EUR][1000 genomes]
rs2327332	0.89[CEU][hapmap];1.00[CHB][hapmap];0.80[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs3102	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3734405	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs3756966	1.00[CEU][hapmap];0.91[EUR][1000 genomes]
rs3778169	1.00[CEU][hapmap];0.91[EUR][1000 genomes]
rs3778170	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3778171	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3798733	1.00[CEU][hapmap];1.00[GIH][hapmap];0.96[TSI][hapmap];0.91[EUR][1000 genomes]
rs3798734	1.00[CEU][hapmap];1.00[GIH][hapmap];0.96[TSI][hapmap];0.91[EUR][1000 genomes]
rs3798736	1.00[CEU][hapmap];0.91[EUR][1000 genomes]
rs3798737	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3798738	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3798743	0.89[CEU][hapmap];0.91[EUR][1000 genomes]
rs3823016	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs6912916	0.95[CEU][hapmap];1.00[GIH][hapmap];0.96[TSI][hapmap];0.91[EUR][1000 genomes]
rs6937575	0.89[CEU][hapmap];0.94[GIH][hapmap];0.96[TSI][hapmap];0.91[EUR][1000 genomes]
rs726230	1.00[CEU][hapmap];1.00[GIH][hapmap];0.92[TSI][hapmap];0.88[EUR][1000 genomes]
rs729747	0.82[CEU][hapmap]
rs9295813	1.00[CEU][hapmap];1.00[GIH][hapmap];0.96[TSI][hapmap];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	nsv1021078	chr6:10819083-11558560	Enhancers Strong transcription Active TSS Flanking Active TSS Weak transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
2	nsv538135	chr6:10819083-11558560	Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:122 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:11197000-11211000	Weak transcription	Fetal Muscle Trunk	muscle
2	chr6:11197000-11211200	Genic enhancers	HepG2	liver
3	chr6:11199400-11212600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
4	chr6:11201600-11211000	Weak transcription	Gastric	stomach
5	chr6:11201800-11213000	Weak transcription	Esophagus	oesophagus
6	chr6:11203800-11213200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
7	chr6:11203800-11213400	Weak transcription	Brain Germinal Matrix	brain
8	chr6:11204000-11210600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
9	chr6:11204000-11211000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr6:11204200-11211000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
11	chr6:11204200-11213600	Weak transcription	Brain Inferior Temporal Lobe	brain
12	chr6:11204200-11213800	Weak transcription	Brain Substantia Nigra	brain
13	chr6:11204200-11222400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
14	chr6:11204800-11210800	Enhancers	Fetal Heart	heart
15	chr6:11205200-11215400	Genic enhancers	NH-A	brain
16	chr6:11205200-11217800	Genic enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
17	chr6:11206400-11210400	Weak transcription	Right Ventricle	heart
18	chr6:11206400-11216600	Enhancers	Fetal Muscle Leg	muscle
19	chr6:11206600-11210800	Enhancers	HMEC	breast
20	chr6:11206600-11211600	Genic enhancers	Rectal Mucosa Donor 31	rectum
21	chr6:11206600-11214600	Enhancers	Skeletal Muscle Male	skeletal muscle
22	chr6:11206600-11214800	Genic enhancers	Osteobl	bone
23	chr6:11206800-11212200	Genic enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
24	chr6:11207000-11211000	Enhancers	Thymus	Thymus
25	chr6:11207200-11210800	Genic enhancers	Rectal Mucosa Donor 29	rectum
26	chr6:11207200-11218600	Strong transcription	Primary B cells from cord blood	blood
27	chr6:11207400-11210600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
28	chr6:11207400-11210800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
29	chr6:11207400-11213800	Enhancers	Fetal Brain Male	brain
30	chr6:11207600-11216800	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
31	chr6:11207800-11210800	Weak transcription	Primary hematopoietic stem cells	blood
32	chr6:11207800-11211000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
33	chr6:11207800-11212400	Weak transcription	Liver	Liver
34	chr6:11207800-11213000	Weak transcription	Stomach Smooth Muscle	stomach
35	chr6:11207800-11216000	Genic enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
36	chr6:11207800-11218200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
37	chr6:11208000-11210400	Weak transcription	Duodenum Smooth Muscle	Duodenum
38	chr6:11208000-11210600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
39	chr6:11208000-11210800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
40	chr6:11208000-11211600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
41	chr6:11208000-11212600	Weak transcription	Colon Smooth Muscle	Colon
42	chr6:11208000-11216200	Weak transcription	Pancreatic Islets	Pancreatic Islet
43	chr6:11208000-11216400	Genic enhancers	Primary Natural Killer cells fromperipheralblood	blood
44	chr6:11208000-11217200	Strong transcription	GM12878-XiMat	blood
45	chr6:11208200-11210400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
46	chr6:11208200-11210400	Strong transcription	Fetal Stomach	stomach
47	chr6:11208200-11210400	Genic enhancers	A549	lung
48	chr6:11208200-11210800	Weak transcription	Brain Anterior Caudate	brain
49	chr6:11208200-11210800	Weak transcription	Colonic Mucosa	Colon
50	chr6:11208200-11211000	Enhancers	Cortex derived primary cultured neurospheres	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links