Variant report

Variant	rs17169293
Chromosome Location	chr7:97739503-97739504
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr7:97738785..97741480-chr7:97751864..97754009,2	MCF-7	breast:
2	chr7:97733859..97737866-chr7:97738343..97741740,8	K562	blood:
3	chr7:97737823..97740365-chr7:97743059..97746026,2	K562	blood:
4	chr7:97737313..97739536-chr7:97747241..97749393,2	K562	blood:

Variant related genes	Relation type
ENSG00000164715	Chromatin interaction

Extended variants
information (count: 85 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:76)

rs_ID	r²[population]
rs10250231	1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes]
rs10255164	0.95[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs10268268	0.95[AMR][1000 genomes]
rs10269563	0.95[AMR][1000 genomes]
rs10270045	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs10274910	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs10277717	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes]
rs10278570	1.00[CEU][hapmap];0.84[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes]
rs10279396	1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes]
rs10499942	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10499943	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11531574	0.95[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs11534031	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes]
rs12530488	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap]
rs12530615	0.89[JPT][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12531245	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12531599	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12535010	1.00[CEU][hapmap];0.81[CHB][hapmap];0.94[JPT][hapmap];0.86[AMR][1000 genomes]
rs12536312	0.86[JPT][hapmap]
rs12537502	1.00[CEU][hapmap];0.82[CHB][hapmap];0.86[JPT][hapmap];0.97[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12539192	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12670423	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12673143	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1404131	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1524266	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1532379	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17169289	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17169304	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17169314	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17169320	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17169329	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17169369	1.00[CEU][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs17169408	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17169414	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs17169418	1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs17169422	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1949787	1.00[AFR][1000 genomes]
rs2177517	0.86[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap]
rs2394826	0.95[AMR][1000 genomes]
rs28451833	0.93[AMR][1000 genomes]
rs28454908	0.92[AMR][1000 genomes]
rs28457167	0.93[AMR][1000 genomes]
rs28797522	0.93[AMR][1000 genomes]
rs28815807	0.93[AMR][1000 genomes]
rs28828382	0.95[AMR][1000 genomes]
rs35170600	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs35943072	0.95[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs3735254	1.00[CEU][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes]
rs3801296	1.00[CEU][hapmap];0.85[CHB][hapmap];0.90[AMR][1000 genomes]
rs56204700	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes]
rs56932675	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs57699757	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs58034163	0.97[AMR][1000 genomes];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs58551784	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs58880085	0.88[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs59564035	0.87[AFR][1000 genomes]
rs59583865	0.85[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs59826024	0.88[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs60183675	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs60191981	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs60264472	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs61063100	0.93[AMR][1000 genomes]
rs61198600	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs61312480	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs72494440	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7781013	0.92[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs872354	0.87[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs884896	1.00[CEU][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes]
rs9640654	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9641228	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9641230	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs9641231	1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes]
rs9641232	1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes]
rs9641233	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs9641234	0.82[AMR][1000 genomes]
rs968527	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[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	nsv1031371	chr7:97312452-98070538	Flanking Active TSS Weak transcription Enhancers Strong transcription Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
2	esv3500384	chr7:97527787-98015382	Flanking Active TSS Enhancers Bivalent/Poised TSS Weak transcription ZNF genes & repeats Strong transcription Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	36 gene(s)	inside rSNPs	diseases
3	esv3500386	chr7:97527787-98015382	Bivalent Enhancer Flanking Active TSS Strong transcription Enhancers Genic enhancers Weak transcription Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	36 gene(s)	inside rSNPs	diseases
4	nsv1017481	chr7:97597641-98041043	Active TSS Weak transcription Flanking Active TSS Genic enhancers Strong transcription Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	32 gene(s)	inside rSNPs	diseases
5	nsv539031	chr7:97597641-98041043	Strong transcription Enhancers Flanking Active TSS Weak transcription Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	32 gene(s)	inside rSNPs	diseases
6	nsv1019531	chr7:97653880-98034129	Weak transcription Bivalent/Poised TSS Enhancers Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer Active TSS Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
7	nsv539032	chr7:97653880-98034129	Enhancers Strong transcription Weak transcription Active TSS Genic enhancers Flanking Active TSS 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	23 gene(s)	inside rSNPs	diseases
8	esv1816676	chr7:97676259-97868033	Weak transcription Strong transcription Active TSS Enhancers ZNF genes & repeats Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
9	nsv831066	chr7:97726879-97890550	Active TSS Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:96 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:97737000-97745200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr7:97737000-97746200	Weak transcription	Spleen	Spleen
3	chr7:97737200-97741800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr7:97737200-97741800	Weak transcription	Lung	lung
5	chr7:97737200-97745600	Weak transcription	Gastric	stomach
6	chr7:97737200-97746200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
7	chr7:97737200-97762400	Weak transcription	Aorta	Aorta
8	chr7:97737200-97764600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
9	chr7:97737400-97741800	Enhancers	Primary T helper cells fromperipheralblood	blood
10	chr7:97737400-97743400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
11	chr7:97737400-97744400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
12	chr7:97737600-97739600	Weak transcription	Brain Germinal Matrix	brain
13	chr7:97737600-97739800	Enhancers	Sigmoid Colon	Sigmoid Colon
14	chr7:97737600-97740800	Weak transcription	Pancreas	Pancrea
15	chr7:97737600-97741400	Enhancers	Fetal Intestine Large	intestine
16	chr7:97737600-97741600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
17	chr7:97737600-97754400	Weak transcription	HSMMtube	muscle
18	chr7:97737600-97762400	Weak transcription	Small Intestine	intestine
19	chr7:97737800-97739600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
20	chr7:97737800-97739600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
21	chr7:97737800-97739800	Enhancers	Skeletal Muscle Female	skeletal muscle
22	chr7:97737800-97740400	Weak transcription	Psoas Muscle	Psoas
23	chr7:97737800-97741000	Enhancers	Fetal Intestine Small	intestine
24	chr7:97737800-97741200	Enhancers	Fetal Brain Male	brain
25	chr7:97737800-97743600	Enhancers	Primary T helper cells PMA-I stimulated	--
26	chr7:97737800-97745600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
27	chr7:97737800-97748600	Weak transcription	Skeletal Muscle Male	skeletal muscle
28	chr7:97737800-97749400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
29	chr7:97737800-97751000	Weak transcription	Stomach Smooth Muscle	stomach
30	chr7:97737800-97759600	Weak transcription	Right Ventricle	heart
31	chr7:97737800-97760800	Weak transcription	Rectal Smooth Muscle	rectum
32	chr7:97737800-97767000	Weak transcription	Fetal Stomach	stomach
33	chr7:97738000-97739600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
34	chr7:97738000-97739600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
35	chr7:97738000-97739600	Weak transcription	Adipose Nuclei	Adipose
36	chr7:97738000-97739600	Weak transcription	Brain Angular Gyrus	brain
37	chr7:97738000-97739800	Weak transcription	Right Atrium	heart
38	chr7:97738000-97740600	Weak transcription	Stomach Mucosa	stomach
39	chr7:97738000-97743000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
40	chr7:97738000-97746200	Weak transcription	NHEK	skin
41	chr7:97738000-97748400	Weak transcription	Muscle Satellite Cultured Cells	--
42	chr7:97738000-97748400	Weak transcription	Duodenum Smooth Muscle	Duodenum
43	chr7:97738000-97751600	Weak transcription	Brain Inferior Temporal Lobe	brain
44	chr7:97738200-97739600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
45	chr7:97738200-97739800	Weak transcription	Pancreatic Islets	Pancreatic Islet
46	chr7:97738200-97740000	Enhancers	Breast Myoepithelial Primary Cells	Breast
47	chr7:97738200-97740000	Weak transcription	NHDF-Ad	bronchial
48	chr7:97738400-97742800	Weak transcription	Primary B cells from cord blood	blood
49	chr7:97738600-97740000	Enhancers	Primary T helper naive cells from peripheral blood	blood
50	chr7:97738600-97740200	Enhancers	Liver	Liver

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links