Variant report

Variant	rs7169976
Chromosome Location	chr15:73855043-73855044
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	chr15:73853723..73855768-chr15:73855937..73858133,2	MCF-7	breast:
2	chr15:73848290..73849987-chr15:73853101..73855624,2	K562	blood:

Extended variants
information (count: 49 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs10162605	0.96[EUR][1000 genomes]
rs10163172	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11633159	0.83[CHB][hapmap];1.00[JPT][hapmap]
rs11638472	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11854774	0.86[EUR][1000 genomes]
rs11856313	0.85[CEU][hapmap];0.95[GIH][hapmap];0.82[MEX][hapmap];0.86[EUR][1000 genomes]
rs12324832	0.86[EUR][1000 genomes]
rs12908815	0.82[AFR][1000 genomes];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs13380155	1.00[CEU][hapmap];0.92[CHB][hapmap];0.86[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.83[LWK][hapmap];1.00[MEX][hapmap];0.87[MKK][hapmap];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13380245	1.00[CEU][hapmap];0.92[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.87[LWK][hapmap];1.00[MEX][hapmap];0.90[MKK][hapmap];1.00[TSI][hapmap];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1481087	0.85[CEU][hapmap];0.95[GIH][hapmap];1.00[MEX][hapmap];0.84[EUR][1000 genomes]
rs1582742	0.80[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs16957919	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs16957997	0.85[CEU][hapmap];0.86[EUR][1000 genomes]
rs16958019	0.85[CEU][hapmap];0.91[GIH][hapmap];1.00[MEX][hapmap];0.86[EUR][1000 genomes]
rs16958025	0.86[EUR][1000 genomes]
rs16958041	0.85[CEU][hapmap];0.84[EUR][1000 genomes]
rs16958050	0.85[CEU][hapmap];0.86[EUR][1000 genomes]
rs2306462	0.85[CEU][hapmap];0.86[EUR][1000 genomes]
rs2415153	0.85[CEU][hapmap];0.82[CHB][hapmap];0.86[EUR][1000 genomes]
rs28834466	0.86[EUR][1000 genomes]
rs3889590	0.93[EUR][1000 genomes]
rs55636021	1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs55695286	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs56190024	0.80[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs56227598	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs57995256	0.86[EUR][1000 genomes]
rs60419012	0.86[EUR][1000 genomes]
rs6495066	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7163212	0.86[EUR][1000 genomes]
rs7163693	1.00[CEU][hapmap];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7164953	0.86[EUR][1000 genomes]
rs7165447	1.00[CEU][hapmap];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7166673	0.85[CEU][hapmap];0.95[GIH][hapmap];0.82[MEX][hapmap];0.86[EUR][1000 genomes]
rs7172130	0.87[AFR][1000 genomes];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7172448	0.82[EUR][1000 genomes]
rs7173068	0.82[AFR][1000 genomes];0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7176452	0.84[EUR][1000 genomes]
rs7177731	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.90[TSI][hapmap];0.80[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7178806	0.85[CEU][hapmap];0.90[GIH][hapmap];0.82[MEX][hapmap];0.86[EUR][1000 genomes]
rs729155	0.85[CEU][hapmap];0.95[GIH][hapmap];0.82[MEX][hapmap];0.84[EUR][1000 genomes]
rs8027255	0.96[EUR][1000 genomes]
rs8028749	0.85[CEU][hapmap];0.95[GIH][hapmap];0.82[MEX][hapmap];0.86[EUR][1000 genomes]
rs8033242	0.85[CEU][hapmap];0.95[GIH][hapmap];1.00[MEX][hapmap];0.81[EUR][1000 genomes]
rs8036438	1.00[CEU][hapmap];0.80[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs8039862	0.85[CEU][hapmap];0.84[EUR][1000 genomes]
rs8040552	0.95[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	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
2	nsv904344	chr15:73800519-73864831	Strong transcription Enhancers Weak transcription Genic enhancers Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:73837000-73860000	Weak transcription	Gastric	stomach
2	chr15:73844000-73856200	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
3	chr15:73844200-73863800	Weak transcription	Pancreatic Islets	Pancreatic Islet
4	chr15:73844800-73865200	Weak transcription	Stomach Mucosa	stomach
5	chr15:73846000-73855800	Strong transcription	Monocytes-CD14+_RO01746	blood
6	chr15:73846000-73856200	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
7	chr15:73846000-73856600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
8	chr15:73846000-73857000	Strong transcription	Stomach Smooth Muscle	stomach
9	chr15:73846200-73856600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr15:73846200-73863800	Strong transcription	Duodenum Mucosa	Duodenum
11	chr15:73846400-73863200	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
12	chr15:73846800-73855400	Weak transcription	Brain Germinal Matrix	brain
13	chr15:73847000-73856000	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
14	chr15:73847000-73856200	Strong transcription	Osteobl	bone
15	chr15:73847000-73856800	Strong transcription	NHEK	skin
16	chr15:73847200-73855400	Weak transcription	Fetal Thymus	thymus
17	chr15:73847400-73855800	Strong transcription	Primary monocytes fromperipheralblood	blood
18	chr15:73847400-73856200	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
19	chr15:73847400-73856200	Strong transcription	Duodenum Smooth Muscle	Duodenum
20	chr15:73847400-73856400	Strong transcription	Muscle Satellite Cultured Cells	--
21	chr15:73847400-73856600	Strong transcription	Primary neutrophils fromperipheralblood	blood
22	chr15:73847400-73856600	Strong transcription	Left Ventricle	heart
23	chr15:73847400-73862000	Strong transcription	Fetal Intestine Large	intestine
24	chr15:73847400-73866000	Strong transcription	Adipose Nuclei	Adipose
25	chr15:73847400-73893200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
26	chr15:73847600-73855400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
27	chr15:73847600-73855400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
28	chr15:73847600-73856200	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
29	chr15:73847600-73858200	Strong transcription	Rectal Mucosa Donor 31	rectum
30	chr15:73847600-73865000	Strong transcription	Rectal Mucosa Donor 29	rectum
31	chr15:73847600-73865400	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
32	chr15:73847600-73865800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
33	chr15:73847600-73866200	Strong transcription	Liver	Liver
34	chr15:73847600-73882400	Strong transcription	Placenta	Placenta
35	chr15:73847800-73856400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
36	chr15:73847800-73858400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
37	chr15:73848000-73856400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
38	chr15:73848000-73860000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
39	chr15:73848000-73860600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
40	chr15:73848200-73855800	Strong transcription	HSMM	muscle
41	chr15:73848200-73856200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
42	chr15:73848200-73856800	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
43	chr15:73848600-73856000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
44	chr15:73848600-73860600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
45	chr15:73848600-73868600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
46	chr15:73848600-73868600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
47	chr15:73848800-73858200	Strong transcription	Primary B cells from peripheral blood	blood
48	chr15:73848800-73861000	Weak transcription	Small Intestine	intestine
49	chr15:73848800-73884800	Strong transcription	Primary T helper cells fromperipheralblood	blood
50	chr15:73848800-73885000	Strong transcription	Primary B cells from cord blood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links