Variant report

Variant	rs7169205
Chromosome Location	chr15:59080203-59080204
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 100 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:93)

rs_ID	r²[population]
rs11071391	0.81[CEU][hapmap];0.94[CHB][hapmap];0.81[JPT][hapmap];0.82[YRI][hapmap]
rs11071393	0.82[CEU][hapmap]
rs11071397	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.92[AMR][1000 genomes];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12437928	0.90[JPT][hapmap]
rs12437952	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs12439231	0.88[CEU][hapmap];0.94[CHB][hapmap];0.81[JPT][hapmap];1.00[YRI][hapmap];0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12439632	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12441313	0.88[CEU][hapmap];0.94[CHB][hapmap];1.00[YRI][hapmap]
rs12441912	0.86[CEU][hapmap];0.93[CHB][hapmap];1.00[YRI][hapmap]
rs12442451	0.88[CEU][hapmap]
rs12591310	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.93[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12592332	0.82[CEU][hapmap];0.86[GIH][hapmap]
rs12595057	0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12708455	0.82[CEU][hapmap]
rs12900343	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12901989	0.82[CEU][hapmap];0.94[CHB][hapmap];0.81[JPT][hapmap];1.00[YRI][hapmap]
rs12905110	0.82[CEU][hapmap];0.94[CHB][hapmap]
rs12906705	0.82[CEU][hapmap];0.84[GIH][hapmap]
rs12906714	0.88[CEU][hapmap];0.94[CHB][hapmap];0.81[JPT][hapmap];1.00[YRI][hapmap]
rs12907237	0.86[CEU][hapmap];0.94[CHB][hapmap];1.00[YRI][hapmap]
rs12908261	0.88[CEU][hapmap];0.94[CHB][hapmap];0.81[JPT][hapmap];1.00[YRI][hapmap]
rs12912286	0.82[CEU][hapmap];0.86[GIH][hapmap]
rs12913383	0.94[CEU][hapmap];0.95[GIH][hapmap];0.81[MEX][hapmap];0.88[TSI][hapmap];0.80[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12914164	0.86[JPT][hapmap]
rs12915713	0.92[ASN][1000 genomes]
rs12917083	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12917577	0.82[CEU][hapmap];0.89[CHB][hapmap];1.00[YRI][hapmap]
rs1426652	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.97[GIH][hapmap];0.85[JPT][hapmap];0.94[MEX][hapmap];0.88[TSI][hapmap];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1551445	1.00[CEU][hapmap];0.94[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.86[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs16940587	0.82[CEU][hapmap]
rs16940589	0.82[CEU][hapmap]
rs16940651	0.84[GIH][hapmap]
rs17236194	0.88[CEU][hapmap];0.94[CHB][hapmap];0.92[CHD][hapmap];0.81[JPT][hapmap];0.87[MEX][hapmap];0.81[TSI][hapmap];1.00[YRI][hapmap]
rs1820480	0.81[EUR][1000 genomes]
rs2013098	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2052805	0.82[CEU][hapmap];0.86[GIH][hapmap]
rs2305421	0.82[CEU][hapmap];0.84[GIH][hapmap];0.81[MEX][hapmap];0.81[TSI][hapmap]
rs2414608	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs28394222	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28412567	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28455654	0.86[GIH][hapmap]
rs28470809	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs28470867	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs28510910	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs28536555	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs28701980	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs28733370	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs28793354	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs28800895	0.82[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs28876251	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs28889637	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs347112	0.90[JPT][hapmap]
rs4775095	0.90[JPT][hapmap]
rs481309	0.90[JPT][hapmap]
rs500057	0.90[JPT][hapmap]
rs501165	0.85[JPT][hapmap]
rs510759	0.90[JPT][hapmap]
rs556256	0.90[JPT][hapmap]
rs561903	0.80[ASN][1000 genomes]
rs574683	0.90[JPT][hapmap]
rs596094	0.80[ASN][1000 genomes]
rs597112	0.90[JPT][hapmap]
rs601795	0.90[JPT][hapmap]
rs62002455	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs62002456	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs625312	0.80[ASN][1000 genomes]
rs6494030	0.84[GIH][hapmap]
rs6494031	0.82[CEU][hapmap];0.86[GIH][hapmap]
rs6494034	0.88[CEU][hapmap];0.94[CHB][hapmap];0.81[JPT][hapmap]
rs6494038	0.82[CEU][hapmap];0.86[GIH][hapmap]
rs652193	0.90[JPT][hapmap]
rs664936	0.85[JPT][hapmap]
rs684505	0.90[JPT][hapmap]
rs688343	0.90[JPT][hapmap]
rs7163733	0.82[CEU][hapmap]
rs7165019	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7165035	0.82[CEU][hapmap]
rs7165402	0.84[GIH][hapmap]
rs7166325	0.84[GIH][hapmap]
rs7167528	0.82[CEU][hapmap]
rs7168825	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7169796	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7171482	0.81[EUR][1000 genomes]
rs7174386	0.84[GIH][hapmap];0.81[TSI][hapmap]
rs7174414	0.80[CEU][hapmap]
rs8025383	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs8029301	0.84[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.87[MKK][hapmap];0.91[ASN][1000 genomes]
rs8029805	0.88[CEU][hapmap];0.94[CHB][hapmap];0.92[CHD][hapmap];0.89[GIH][hapmap];0.81[JPT][hapmap];0.87[MEX][hapmap];0.81[TSI][hapmap]
rs8033691	0.88[CEU][hapmap];0.94[CHB][hapmap];0.81[JPT][hapmap]
rs8036005	0.82[CEU][hapmap]
rs8039791	0.83[GIH][hapmap]
rs9635351	0.82[CEU][hapmap]
rs9921024	0.82[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1051058	chr15:58519922-59092530	Strong transcription Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
2	nsv542401	chr15:58519922-59092530	Strong transcription Weak transcription Active TSS Flanking Active TSS Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
3	esv34110	chr15:58949991-59381634	Weak transcription Bivalent Enhancer Strong transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	87 gene(s)	inside rSNPs	diseases
4	esv1843037	chr15:59005922-59115159	Enhancers Weak transcription Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Active TSS Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	37 gene(s)	inside rSNPs	diseases
5	esv1826703	chr15:59005922-59213678	Flanking Active TSS Enhancers Strong transcription Weak transcription Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
6	esv1798487	chr15:59027139-59213678	Strong transcription Weak transcription Enhancers Active TSS Bivalent/Poised TSS Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
7	nsv428638	chr15:59032300-59126567	Enhancers Weak transcription Genic enhancers Active TSS Flanking Active TSS Strong transcription Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	35 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7169205	ONECUT1	cis	cerebellum	SCAN

Chromatin state (count:107 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:59064600-59081000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr15:59064600-59085000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr15:59064600-59102800	Weak transcription	Lung	lung
4	chr15:59064600-59102800	Weak transcription	Pancreas	Pancrea
5	chr15:59064600-59103200	Weak transcription	Esophagus	oesophagus
6	chr15:59064600-59145600	Weak transcription	Gastric	stomach
7	chr15:59064800-59095400	Weak transcription	Fetal Muscle Trunk	muscle
8	chr15:59065200-59117800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
9	chr15:59065600-59082600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
10	chr15:59065800-59082600	Weak transcription	Placenta	Placenta
11	chr15:59065800-59094600	Weak transcription	Primary hematopoietic stem cells	blood
12	chr15:59065800-59095000	Weak transcription	Fetal Thymus	thymus
13	chr15:59065800-59102800	Weak transcription	H1 Cell Line	embryonic stem cell
14	chr15:59065800-59103200	Weak transcription	NH-A	brain
15	chr15:59065800-59142800	Weak transcription	Aorta	Aorta
16	chr15:59066000-59085200	Weak transcription	Placenta Amnion	Placenta Amnion
17	chr15:59066000-59095000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
18	chr15:59066000-59102400	Weak transcription	HSMM	muscle
19	chr15:59066200-59081600	Weak transcription	Fetal Muscle Leg	muscle
20	chr15:59066200-59084200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
21	chr15:59066200-59095000	Weak transcription	Osteobl	bone
22	chr15:59066200-59095600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
23	chr15:59066400-59084200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
24	chr15:59066400-59085200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
25	chr15:59066400-59091000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
26	chr15:59066400-59095000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
27	chr15:59066400-59095000	Weak transcription	Fetal Intestine Large	intestine
28	chr15:59066600-59102400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
29	chr15:59067000-59082600	Weak transcription	Sigmoid Colon	Sigmoid Colon
30	chr15:59067000-59083600	Weak transcription	HMEC	breast
31	chr15:59067000-59094600	Weak transcription	HUES64 Cell Line	embryonic stem cell
32	chr15:59067000-59094800	Weak transcription	Duodenum Mucosa	Duodenum
33	chr15:59067000-59102400	Weak transcription	HUES48 Cell Line	embryonic stem cell
34	chr15:59067000-59102800	Weak transcription	Stomach Smooth Muscle	stomach
35	chr15:59067000-59102800	Weak transcription	NHDF-Ad	bronchial
36	chr15:59067000-59157800	Weak transcription	Hela-S3	cervix
37	chr15:59067200-59080400	Weak transcription	Primary monocytes fromperipheralblood	blood
38	chr15:59067200-59094800	Weak transcription	Rectal Mucosa Donor 29	rectum
39	chr15:59067200-59095000	Weak transcription	Fetal Lung	lung
40	chr15:59067200-59103200	Weak transcription	Rectal Mucosa Donor 31	rectum
41	chr15:59067400-59085400	Weak transcription	NHEK	skin
42	chr15:59067400-59102600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
43	chr15:59067400-59102800	Weak transcription	Brain Angular Gyrus	brain
44	chr15:59067400-59111400	Weak transcription	Muscle Satellite Cultured Cells	--
45	chr15:59067600-59080400	Weak transcription	Primary neutrophils fromperipheralblood	blood
46	chr15:59067800-59094800	Weak transcription	Monocytes-CD14+_RO01746	blood
47	chr15:59067800-59105000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
48	chr15:59068000-59082800	Weak transcription	Dnd41	blood
49	chr15:59068000-59086000	Weak transcription	Fetal Kidney	kidney
50	chr15:59068600-59085800	Weak transcription	HepG2	liver

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links