Variant report

Variant	rs729263
Chromosome Location	chr15:75162751-75162752
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:75161949..75163457-chr15:75228815..75230977,2	MCF-7	breast:
2	chr15:75158451..75161193-chr15:75161527..75164480,2	MCF-7	breast:
3	chr15:75162469..75167536-chr15:75180880..75184902,6	K562	blood:
4	chr15:75134049..75139648-chr15:75161531..75167020,13	MCF-7	breast:
5	chr15:75136180..75138079-chr15:75161900..75164141,2	K562	blood:
6	chr15:75152352..75156342-chr15:75158618..75163297,4	K562	blood:
7	chr15:75161914..75167776-chr15:75191644..75199761,13	MCF-7	breast:

Variant related genes	Relation type
ENSG00000178802	Chromatin interaction
ENSG00000140474	Chromatin interaction
ENSG00000178761	Chromatin interaction
ENSG00000260824	Chromatin interaction
ENSG00000178741	Chromatin interaction

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs11072511	0.95[LWK][hapmap];0.96[YRI][hapmap];0.86[AFR][1000 genomes]
rs1130741	0.95[LWK][hapmap];0.92[YRI][hapmap];0.86[AFR][1000 genomes]
rs11857695	0.83[AFR][1000 genomes]
rs12101507	0.85[AFR][1000 genomes]
rs12439641	1.00[CHB][hapmap];0.96[YRI][hapmap];0.96[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs12440159	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap]
rs12441499	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12442804	0.90[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs12902515	0.86[AFR][1000 genomes]
rs12903205	0.83[AFR][1000 genomes]
rs12904897	0.80[AFR][1000 genomes]
rs12913293	0.86[AFR][1000 genomes]
rs2230479	0.83[LWK][hapmap];0.82[AFR][1000 genomes]
rs28726277	0.86[AFR][1000 genomes]
rs3935818	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.97[MKK][hapmap];0.96[YRI][hapmap];0.99[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs4886635	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap]
rs4886636	0.90[LWK][hapmap];0.92[YRI][hapmap];0.86[AFR][1000 genomes]
rs56671860	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs58856253	0.87[AFR][1000 genomes]
rs60494786	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs60698434	0.85[AFR][1000 genomes]
rs7179093	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.97[MKK][hapmap];0.96[YRI][hapmap];0.99[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs7495739	0.95[LWK][hapmap];0.92[YRI][hapmap];0.86[AFR][1000 genomes]
rs8025447	0.84[AFR][1000 genomes]
rs8031052	0.81[AFR][1000 genomes]
rs8032473	0.94[AFR][1000 genomes]
rs9672491	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv833055	chr15:74988344-75166288	Weak transcription Active TSS Genic enhancers Flanking Active TSS Strong transcription Enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
2	nsv904381	chr15:75108636-75242155	Weak transcription Genic enhancers Enhancers Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
3	nsv827386	chr15:75161362-75166473	Enhancers Active TSS Flanking Active TSS Strong transcription Weak transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	11 gene(s)	inside rSNPs	n/a
4	nsv827388	chr15:75161362-75169121	Flanking Active TSS Strong transcription Weak transcription Active TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	11 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:75136600-75163000	Weak transcription	Fetal Brain Male	brain
2	chr15:75137000-75164800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr15:75143600-75163000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
4	chr15:75146000-75164800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr15:75146200-75163200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
6	chr15:75146400-75163200	Weak transcription	H1 Cell Line	embryonic stem cell
7	chr15:75146600-75163000	Weak transcription	H9 Cell Line	embryonic stem cell
8	chr15:75146600-75164600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
9	chr15:75147000-75164800	Weak transcription	Ovary	ovary
10	chr15:75147200-75164800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
11	chr15:75155800-75164400	Genic enhancers	Fetal Intestine Small	intestine
12	chr15:75156000-75164800	Enhancers	Fetal Intestine Large	intestine
13	chr15:75156600-75163800	Enhancers	Stomach Mucosa	stomach
14	chr15:75156800-75163600	Enhancers	Right Ventricle	heart
15	chr15:75157000-75163000	Enhancers	Primary monocytes fromperipheralblood	blood
16	chr15:75157800-75164600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
17	chr15:75158000-75165000	Enhancers	Spleen	Spleen
18	chr15:75158200-75164600	Enhancers	Pancreas	Pancrea
19	chr15:75158200-75165000	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
20	chr15:75158400-75164800	Enhancers	Liver	Liver
21	chr15:75158600-75163800	Enhancers	Sigmoid Colon	Sigmoid Colon
22	chr15:75159000-75164600	Weak transcription	Osteobl	bone
23	chr15:75159200-75164000	Enhancers	Small Intestine	intestine
24	chr15:75159200-75164800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
25	chr15:75159400-75163000	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
26	chr15:75159400-75163600	Genic enhancers	Fetal Adrenal Gland	Adrenal Gland
27	chr15:75159400-75163800	Genic enhancers	Primary B cells from peripheral blood	blood
28	chr15:75159600-75164000	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
29	chr15:75159800-75164000	Enhancers	Lung	lung
30	chr15:75160200-75164000	Enhancers	HUVEC	blood vessel
31	chr15:75160400-75163600	Genic enhancers	Thymus	Thymus
32	chr15:75160600-75162800	Weak transcription	HUES64 Cell Line	embryonic stem cell
33	chr15:75160600-75162800	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
34	chr15:75160600-75163800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
35	chr15:75160600-75164800	Enhancers	Fetal Thymus	thymus
36	chr15:75160800-75162800	Weak transcription	Cortex derived primary cultured neurospheres	brain
37	chr15:75160800-75164600	Weak transcription	HUES48 Cell Line	embryonic stem cell
38	chr15:75161000-75163000	Weak transcription	HUES6 Cell Line	embryonic stem cell
39	chr15:75161000-75163000	Weak transcription	Fetal Brain Female	brain
40	chr15:75161000-75163200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
41	chr15:75161000-75164400	Enhancers	Placenta	Placenta
42	chr15:75161000-75164600	Weak transcription	A549	lung
43	chr15:75161200-75163800	Genic enhancers	Fetal Stomach	stomach
44	chr15:75161400-75163400	Enhancers	Left Ventricle	heart
45	chr15:75161400-75163800	Flanking Active TSS	GM12878-XiMat	blood
46	chr15:75161400-75164200	Enhancers	Placenta Amnion	Placenta Amnion
47	chr15:75161400-75164800	Enhancers	Breast Myoepithelial Primary Cells	Breast
48	chr15:75161600-75163200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
49	chr15:75161600-75163600	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
50	chr15:75161600-75163600	Flanking Active TSS	Rectal Mucosa Donor 29	rectum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links