Variant report

Variant	rs16958079
Chromosome Location	chr15:73910374-73910375
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:73910340..73912093-chr15:73919702..73922481,2	K562	blood:
2	chr15:73890210..73895158-chr15:73907012..73911430,4	MCF-7	breast:
3	chr15:73907248..73910394-chr15:73923600..73926433,4	MCF-7	breast:
4	chr15:73905557..73907198-chr15:73910177..73912804,2	K562	blood:
5	chr15:73910087..73912368-chr15:73912396..73915641,4	MCF-7	breast:
6	chr15:73905420..73907478-chr15:73909358..73912347,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000156642	Chromatin interaction

Extended variants
information (count: 27 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10851863	0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11072428	0.91[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11072429	0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11072430	0.80[JPT][hapmap]
rs11072431	0.81[JPT][hapmap]
rs12148532	0.86[CEU][hapmap];0.82[CHB][hapmap];0.81[JPT][hapmap];0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12148719	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12185108	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12442903	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs12593246	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1383616	0.86[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1481088	0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1481089	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.85[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3743500	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4470111	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4558379	0.81[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs6495069	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6495075	0.80[JPT][hapmap]
rs6495076	0.82[JPT][hapmap]
rs7169374	0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7176637	0.82[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs8023823	0.87[CEU][hapmap];0.83[CHB][hapmap];0.86[JPT][hapmap];0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs8028089	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs8037836	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs922687	0.87[ASN][1000 genomes]
rs9920359	0.95[CEU][hapmap];0.81[CHB][hapmap];0.95[JPT][hapmap];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][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	nsv1037540	chr15:73712637-73982420	Weak transcription Bivalent Enhancer Enhancers Strong transcription Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:92 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:73895000-73924400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr15:73895200-73921400	Weak transcription	Fetal Thymus	thymus
3	chr15:73895200-73924200	Weak transcription	Esophagus	oesophagus
4	chr15:73895400-73922400	Weak transcription	Colonic Mucosa	Colon
5	chr15:73895800-73912200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
6	chr15:73895800-73912600	Weak transcription	Brain Substantia Nigra	brain
7	chr15:73895800-73913600	Weak transcription	A549	lung
8	chr15:73895800-73923600	Weak transcription	Placenta Amnion	Placenta Amnion
9	chr15:73895800-73924200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
10	chr15:73896200-73912400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
11	chr15:73896200-73912600	Weak transcription	Cortex derived primary cultured neurospheres	brain
12	chr15:73896400-73912200	Weak transcription	Primary T helper cells fromperipheralblood	blood
13	chr15:73896400-73920400	Weak transcription	Primary T cells from cord blood	blood
14	chr15:73897400-73911800	Weak transcription	Fetal Intestine Large	intestine
15	chr15:73899600-73924200	Weak transcription	Gastric	stomach
16	chr15:73900400-73921800	Weak transcription	Primary B cells from cord blood	blood
17	chr15:73900400-73924000	Weak transcription	Fetal Muscle Leg	muscle
18	chr15:73900800-73912800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
19	chr15:73901200-73913000	Weak transcription	Brain Angular Gyrus	brain
20	chr15:73901200-73915200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
21	chr15:73901400-73916400	Weak transcription	Fetal Kidney	kidney
22	chr15:73901400-73916800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
23	chr15:73901400-73920600	Weak transcription	Primary monocytes fromperipheralblood	blood
24	chr15:73901600-73919800	Weak transcription	Adipose Nuclei	Adipose
25	chr15:73901800-73910800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
26	chr15:73901800-73912200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
27	chr15:73901800-73916600	Weak transcription	Right Ventricle	heart
28	chr15:73901800-73922400	Weak transcription	Right Atrium	heart
29	chr15:73902000-73910400	Weak transcription	Psoas Muscle	Psoas
30	chr15:73902000-73911800	Weak transcription	Fetal Intestine Small	intestine
31	chr15:73902000-73912200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
32	chr15:73902000-73912200	Weak transcription	Small Intestine	intestine
33	chr15:73902000-73920600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
34	chr15:73902800-73916800	Weak transcription	Ovary	ovary
35	chr15:73902800-73924400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
36	chr15:73903400-73924000	Weak transcription	Thymus	Thymus
37	chr15:73903600-73912400	Weak transcription	GM12878-XiMat	blood
38	chr15:73904000-73916200	Weak transcription	Fetal Stomach	stomach
39	chr15:73904200-73911800	Weak transcription	Duodenum Smooth Muscle	Duodenum
40	chr15:73904200-73913800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
41	chr15:73904600-73912200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
42	chr15:73904600-73912600	Weak transcription	Sigmoid Colon	Sigmoid Colon
43	chr15:73904800-73919200	Weak transcription	Pancreas	Pancrea
44	chr15:73904800-73921400	Weak transcription	K562	blood
45	chr15:73904800-73924200	Weak transcription	Lung	lung
46	chr15:73906000-73917000	Weak transcription	Monocytes-CD14+_RO01746	blood
47	chr15:73907800-73910600	Enhancers	Colon Smooth Muscle	Colon
48	chr15:73907800-73910600	Enhancers	Skeletal Muscle Female	skeletal muscle
49	chr15:73908200-73916200	Weak transcription	Brain Anterior Caudate	brain
50	chr15:73908800-73910600	Enhancers	H1 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links