Variant report

Variant	rs34914952
Chromosome Location	chr20:16263615-16263616
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr20:16259201..16261039-chr20:16261125..16263893,2	MCF-7	breast:

Extended variants
information (count: 35 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs13038209	0.85[EUR][1000 genomes]
rs13040354	0.82[EUR][1000 genomes]
rs13040454	0.82[EUR][1000 genomes]
rs13042199	0.93[EUR][1000 genomes]
rs13042286	0.82[EUR][1000 genomes]
rs13043684	0.85[EUR][1000 genomes]
rs13044167	0.82[EUR][1000 genomes]
rs34372607	0.85[EUR][1000 genomes]
rs34543355	0.85[EUR][1000 genomes]
rs34776633	1.00[ASN][1000 genomes]
rs34822784	0.82[EUR][1000 genomes]
rs34990368	0.85[EUR][1000 genomes]
rs35123649	0.85[EUR][1000 genomes]
rs35193759	0.85[EUR][1000 genomes]
rs35281214	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35291129	0.85[EUR][1000 genomes]
rs35458737	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35583105	0.85[EUR][1000 genomes]
rs35933731	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6034438	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6034439	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6034444	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6043852	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6043854	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6043858	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6043863	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6043864	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6043870	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6111016	0.92[ASN][1000 genomes]
rs66481149	0.82[EUR][1000 genomes]
rs66839904	0.82[EUR][1000 genomes]
rs67182398	0.82[EUR][1000 genomes]
rs73112319	0.82[EUR][1000 genomes]
rs8126093	0.85[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv833930	chr20:16134347-16302763	Weak transcription Enhancers ZNF genes & repeats Active TSS Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region miRNA target site	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:56 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:16242400-16275000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
2	chr20:16247600-16290800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
3	chr20:16248400-16263800	Weak transcription	Skeletal Muscle Male	skeletal muscle
4	chr20:16248600-16291400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
5	chr20:16248800-16267000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
6	chr20:16248800-16272600	Weak transcription	Primary T cells from cord blood	blood
7	chr20:16249000-16272800	Weak transcription	Right Ventricle	heart
8	chr20:16249200-16277400	Weak transcription	Brain Substantia Nigra	brain
9	chr20:16249400-16264000	Weak transcription	Skeletal Muscle Female	skeletal muscle
10	chr20:16250000-16266800	Weak transcription	Brain Inferior Temporal Lobe	brain
11	chr20:16251000-16265000	Weak transcription	Rectal Mucosa Donor 29	rectum
12	chr20:16251400-16263800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
13	chr20:16252000-16270800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
14	chr20:16252000-16289400	Weak transcription	Rectal Smooth Muscle	rectum
15	chr20:16252400-16264400	Weak transcription	Small Intestine	intestine
16	chr20:16252400-16283000	Weak transcription	Primary T helper cells PMA-I stimulated	--
17	chr20:16252800-16264800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
18	chr20:16253000-16277800	Weak transcription	Brain Angular Gyrus	brain
19	chr20:16253600-16268200	Weak transcription	Primary T cells fromperipheralblood	blood
20	chr20:16254000-16263800	Weak transcription	Fetal Muscle Trunk	muscle
21	chr20:16254000-16264000	Weak transcription	Aorta	Aorta
22	chr20:16254000-16264400	Weak transcription	Duodenum Mucosa	Duodenum
23	chr20:16254000-16265200	Weak transcription	NHEK	skin
24	chr20:16254000-16278800	Weak transcription	Adipose Nuclei	Adipose
25	chr20:16254000-16281400	Weak transcription	Rectal Mucosa Donor 31	rectum
26	chr20:16254000-16290800	Weak transcription	Esophagus	oesophagus
27	chr20:16254000-16298400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
28	chr20:16254200-16278600	Weak transcription	Pancreas	Pancrea
29	chr20:16254200-16284200	Weak transcription	Sigmoid Colon	Sigmoid Colon
30	chr20:16254600-16264000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
31	chr20:16255400-16283000	Weak transcription	Fetal Lung	lung
32	chr20:16257400-16264800	Weak transcription	Primary B cells from cord blood	blood
33	chr20:16257800-16264200	Weak transcription	Primary B cells from peripheral blood	blood
34	chr20:16260800-16264200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
35	chr20:16261200-16263800	Weak transcription	Psoas Muscle	Psoas
36	chr20:16261200-16264200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
37	chr20:16261400-16264800	Weak transcription	Spleen	Spleen
38	chr20:16261400-16272800	Weak transcription	Osteobl	bone
39	chr20:16261600-16264600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
40	chr20:16261600-16264600	Weak transcription	Left Ventricle	heart
41	chr20:16261600-16264600	Weak transcription	Lung	lung
42	chr20:16261600-16270800	Weak transcription	HepG2	liver
43	chr20:16262000-16266600	Weak transcription	Thymus	Thymus
44	chr20:16262400-16264400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
45	chr20:16262600-16285400	Weak transcription	Ovary	ovary
46	chr20:16262600-16346200	Weak transcription	Gastric	stomach
47	chr20:16263000-16264400	Strong transcription	Duodenum Smooth Muscle	Duodenum
48	chr20:16263000-16265600	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
49	chr20:16263200-16264200	ZNF genes & repeats	Foreskin Melanocyte Primary Cells skin01	Skin
50	chr20:16263200-16264400	ZNF genes & repeats	Fetal Brain Female	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links