Variant report

Variant	rs729355
Chromosome Location	chr17:15349114-15349115
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr17:15347764..15350402-chr17:15358550..15361174,2	K562	blood:
2	chr17:15338658..15340870-chr17:15348671..15351090,2	K562	blood:
3	chr17:15338765..15340870-chr17:15347509..15350171,2	K562	blood:

Extended variants
information (count: 50 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs1019092	1.00[CEU][hapmap];0.91[CHB][hapmap];0.90[JPT][hapmap];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10432020	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1548679	1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1548680	1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17842195	1.00[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1986881	0.80[AMR][1000 genomes]
rs2108757	1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];0.84[MEX][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2190914	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2323734	1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2875140	1.00[CEU][hapmap];0.91[CHB][hapmap];0.95[CHD][hapmap];0.97[GIH][hapmap];0.90[JPT][hapmap];0.89[MEX][hapmap];1.00[TSI][hapmap];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2906973	1.00[CEU][hapmap];0.90[JPT][hapmap];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2906977	0.89[CHB][hapmap];0.89[JPT][hapmap];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2906978	0.91[CHB][hapmap];0.81[JPT][hapmap];0.86[ASN][1000 genomes]
rs2906979	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2906980	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2906981	0.96[ASN][1000 genomes]
rs2906982	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2906983	1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2906984	1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2906985	1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];0.89[MEX][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2954759	0.93[GIH][hapmap];0.95[JPT][hapmap];0.84[MEX][hapmap];0.83[MKK][hapmap];0.80[AMR][1000 genomes]
rs2954760	0.90[GIH][hapmap]
rs2954761	0.95[JPT][hapmap];0.80[AMR][1000 genomes]
rs2954762	0.90[GIH][hapmap]
rs2954765	0.87[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs2954770	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2954771	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2954772	1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2954773	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2954774	1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2954775	1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2954776	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2954777	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2954778	1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];0.84[MEX][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2954779	1.00[CEU][hapmap];0.91[CHB][hapmap];0.95[CHD][hapmap];0.97[GIH][hapmap];0.90[JPT][hapmap];1.00[TSI][hapmap];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs56055931	0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs728854	1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs729356	1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs729357	1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs887033	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs887034	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv492304	chr17:15043353-15611753	Active TSS Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	58 gene(s)	inside rSNPs	diseases
2	nsv916652	chr17:15093600-15856310	Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	73 gene(s)	inside rSNPs	diseases
3	nsv427990	chr17:15154329-15434020	Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Active TSS Weak transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
4	nsv907703	chr17:15199907-15370701	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
5	nsv949172	chr17:15206970-15416808	Active TSS Flanking Active TSS Enhancers Weak transcription Strong transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
6	nsv1055677	chr17:15294011-15561130	Enhancers Flanking Active TSS Weak transcription Genic enhancers Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
7	nsv1059056	chr17:15294011-15856861	Strong transcription Weak transcription Active TSS Enhancers Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
8	nsv1058286	chr17:15315763-15561130	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
9	nsv543213	chr17:15315763-15561130	Weak transcription Enhancers Genic enhancers Strong transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:85 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:15333600-15361000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr17:15338400-15362200	Weak transcription	HUES48 Cell Line	embryonic stem cell
3	chr17:15339400-15354800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
4	chr17:15339400-15358800	Weak transcription	Pancreatic Islets	Pancreatic Islet
5	chr17:15339600-15367000	Weak transcription	A549	lung
6	chr17:15340000-15355400	Weak transcription	Hela-S3	cervix
7	chr17:15340000-15355800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
8	chr17:15340000-15357400	Weak transcription	Rectal Mucosa Donor 29	rectum
9	chr17:15340200-15354800	Weak transcription	Osteobl	bone
10	chr17:15340200-15355600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
11	chr17:15340400-15355600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr17:15340400-15356000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
13	chr17:15340400-15359000	Weak transcription	Colon Smooth Muscle	Colon
14	chr17:15340600-15359800	Weak transcription	Duodenum Smooth Muscle	Duodenum
15	chr17:15340600-15360200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
16	chr17:15340600-15360200	Weak transcription	Fetal Thymus	thymus
17	chr17:15340600-15366200	Weak transcription	Gastric	stomach
18	chr17:15340600-15366800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
19	chr17:15340600-15399600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
20	chr17:15341000-15351800	Weak transcription	Pancreas	Pancrea
21	chr17:15341200-15352000	Weak transcription	Fetal Muscle Trunk	muscle
22	chr17:15341200-15355600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
23	chr17:15341200-15356200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
24	chr17:15341200-15359800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
25	chr17:15341400-15351400	Weak transcription	Fetal Muscle Leg	muscle
26	chr17:15341400-15355400	Weak transcription	HUES64 Cell Line	embryonic stem cell
27	chr17:15341400-15356000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
28	chr17:15341400-15359600	Weak transcription	Stomach Smooth Muscle	stomach
29	chr17:15341400-15360200	Weak transcription	Aorta	Aorta
30	chr17:15341400-15360800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
31	chr17:15341400-15366800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
32	chr17:15341400-15366800	Weak transcription	Esophagus	oesophagus
33	chr17:15341400-15368400	Weak transcription	H9 Cell Line	embryonic stem cell
34	chr17:15341400-15375800	Weak transcription	H1 Cell Line	embryonic stem cell
35	chr17:15341600-15357200	Weak transcription	Sigmoid Colon	Sigmoid Colon
36	chr17:15341800-15354800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
37	chr17:15342600-15351400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
38	chr17:15342800-15351200	Weak transcription	Duodenum Mucosa	Duodenum
39	chr17:15342800-15351200	Weak transcription	Small Intestine	intestine
40	chr17:15343000-15353600	Weak transcription	HepG2	liver
41	chr17:15343000-15356600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
42	chr17:15343800-15349400	Weak transcription	Fetal Stomach	stomach
43	chr17:15344200-15350400	Weak transcription	Right Ventricle	heart
44	chr17:15344200-15350600	Weak transcription	Right Atrium	heart
45	chr17:15344200-15351400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
46	chr17:15344200-15351800	Weak transcription	Lung	lung
47	chr17:15344800-15350400	Weak transcription	Left Ventricle	heart
48	chr17:15344800-15351000	Weak transcription	Fetal Intestine Small	intestine
49	chr17:15346200-15350800	Weak transcription	Brain Substantia Nigra	brain
50	chr17:15346400-15355400	Weak transcription	Brain Germinal Matrix	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links