Variant report

Variant	rs17351644
Chromosome Location	chr9:97202200-97202201
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	chr9:97200618..97202652-chr9:97218281..97220232,2	MCF-7	breast:

Extended variants
information (count: 52 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs1064560	1.00[YRI][hapmap]
rs10821336	0.91[CEU][hapmap];1.00[YRI][hapmap]
rs10821343	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10821344	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10821349	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10821350	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10821351	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10993141	1.00[ASW][hapmap];0.91[CEU][hapmap];1.00[CHD][hapmap];1.00[YRI][hapmap]
rs10993142	0.91[CEU][hapmap];1.00[YRI][hapmap]
rs10993146	1.00[ASW][hapmap];0.91[CEU][hapmap];1.00[YRI][hapmap]
rs10993153	1.00[CEU][hapmap];1.00[AFR][1000 genomes]
rs10993185	0.87[AMR][1000 genomes]
rs10993190	0.88[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10993195	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10993200	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10993202	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10993208	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10993209	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10993212	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12335794	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12335976	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs12342163	0.88[GIH][hapmap]
rs12343413	1.00[CEU][hapmap];1.00[CHD][hapmap];0.83[GIH][hapmap];1.00[TSI][hapmap]
rs12344077	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12349965	0.83[EUR][1000 genomes]
rs12350212	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs12352497	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs13292835	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs34117319	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4557766	0.91[CEU][hapmap]
rs600130	1.00[YRI][hapmap]
rs7026123	0.86[AMR][1000 genomes]
rs7027819	0.88[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7029667	0.91[CEU][hapmap];1.00[YRI][hapmap]
rs7048293	0.87[AMR][1000 genomes]
rs71263779	0.87[AMR][1000 genomes]
rs7467208	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7849604	1.00[ASW][hapmap];0.91[CEU][hapmap];1.00[YRI][hapmap]
rs7863750	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7865288	1.00[ASW][hapmap];0.91[CEU][hapmap];1.00[CHD][hapmap]
rs7865561	1.00[ASW][hapmap];0.91[CEU][hapmap];1.00[CHD][hapmap]
rs7867183	0.86[CEU][hapmap];1.00[YRI][hapmap]
rs7867289	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7874524	1.00[CEU][hapmap]
rs9886806	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]

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	nsv893592	chr9:96973995-97295269	Strong transcription ZNF genes & repeats Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer 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	18 gene(s)	inside rSNPs	diseases
2	nsv1046906	chr9:96999227-97239809	Enhancers Strong transcription Weak transcription 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	10 gene(s)	inside rSNPs	diseases
3	esv2761545	chr9:97025298-97356950	Enhancers Weak transcription Active TSS Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer 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	16 gene(s)	inside rSNPs	diseases
4	nsv1041195	chr9:97054795-97402378	Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Weak transcription Genic enhancers Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
5	esv33917	chr9:97185592-97216212	Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	nsv893593	chr9:97196979-97228918	Weak transcription ZNF genes & repeats Strong transcription Genic enhancers Enhancers Active TSS	Chromatin interactive region lncRNA miRNA target site	1 gene(s)	inside rSNPs	diseases
7	esv1840205	chr9:97202200-97366400	Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:109 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:97158000-97203200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
2	chr9:97160400-97203600	Weak transcription	Primary B cells from peripheral blood	blood
3	chr9:97166400-97206400	Weak transcription	HSMMtube	muscle
4	chr9:97167800-97203600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
5	chr9:97169800-97207000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr9:97172000-97203200	Weak transcription	Primary T helper cells PMA-I stimulated	--
7	chr9:97172000-97208400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
8	chr9:97172600-97204200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr9:97174200-97207000	Weak transcription	Lung	lung
10	chr9:97175600-97204200	Weak transcription	Fetal Muscle Trunk	muscle
11	chr9:97175800-97202200	Weak transcription	Dnd41	blood
12	chr9:97176000-97203800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
13	chr9:97176200-97203200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
14	chr9:97176200-97203600	Weak transcription	Primary hematopoietic stem cells	blood
15	chr9:97176200-97203600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
16	chr9:97176200-97207000	Weak transcription	Left Ventricle	heart
17	chr9:97176400-97203200	Weak transcription	Rectal Mucosa Donor 29	rectum
18	chr9:97176600-97203400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
19	chr9:97176800-97203200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
20	chr9:97176800-97203600	Weak transcription	Duodenum Mucosa	Duodenum
21	chr9:97176800-97218000	Weak transcription	Fetal Brain Female	brain
22	chr9:97177000-97203200	Weak transcription	Osteobl	bone
23	chr9:97177200-97203600	Weak transcription	Thymus	Thymus
24	chr9:97177200-97209400	Weak transcription	Cortex derived primary cultured neurospheres	brain
25	chr9:97177400-97206400	Weak transcription	Gastric	stomach
26	chr9:97178000-97203800	Weak transcription	K562	blood
27	chr9:97178400-97203600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
28	chr9:97178400-97206800	Weak transcription	Esophagus	oesophagus
29	chr9:97179800-97203200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
30	chr9:97180200-97203600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
31	chr9:97180400-97203600	Weak transcription	HUES48 Cell Line	embryonic stem cell
32	chr9:97180800-97203200	Weak transcription	GM12878-XiMat	blood
33	chr9:97181000-97204800	Weak transcription	Placenta	Placenta
34	chr9:97181000-97208400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
35	chr9:97181400-97215800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
36	chr9:97181600-97206400	Weak transcription	HUVEC	blood vessel
37	chr9:97182400-97203600	Weak transcription	Sigmoid Colon	Sigmoid Colon
38	chr9:97182600-97203000	Weak transcription	Rectal Mucosa Donor 31	rectum
39	chr9:97183000-97212000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
40	chr9:97183800-97203200	Weak transcription	Adipose Nuclei	Adipose
41	chr9:97184400-97203200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
42	chr9:97184400-97203600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
43	chr9:97185000-97203600	Weak transcription	Primary T cells from cord blood	blood
44	chr9:97186200-97204200	Weak transcription	Spleen	Spleen
45	chr9:97187600-97205200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
46	chr9:97190000-97202800	Weak transcription	Liver	Liver
47	chr9:97190400-97215800	Weak transcription	Ovary	ovary
48	chr9:97191600-97208200	Weak transcription	Skeletal Muscle Female	skeletal muscle
49	chr9:97192200-97203600	Weak transcription	Fetal Intestine Large	intestine
50	chr9:97192200-97210000	Weak transcription	NHDF-Ad	bronchial

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