Variant report

Variant	rs9837602
Chromosome Location	chr3:99824685-99824686
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:99807984..99809965-chr3:99822463..99825380,2	MCF-7	breast:
2	chr3:99824566..99827105-chr3:99830597..99832323,2	MCF-7	breast:
3	chr3:99807438..99810251-chr3:99824386..99825972,2	K562	blood:
4	chr3:99823372..99826279-chr3:99859359..99861519,2	K562	blood:

Extended variants
information (count: 106 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:96)

rs_ID	r²[population]
rs10049383	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1016914	0.83[JPT][hapmap]
rs1017968	0.90[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10212525	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1021341	0.94[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10511177	0.94[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10936005	0.82[JPT][hapmap]
rs10936008	0.81[CHB][hapmap];0.82[JPT][hapmap]
rs11537816	0.82[AMR][1000 genomes]
rs13064704	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13069311	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13093776	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs13093838	0.81[AMR][1000 genomes]
rs13317017	0.82[JPT][hapmap]
rs13323143	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1489816	1.00[CEU][hapmap];0.89[CHB][hapmap];0.82[JPT][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1688766	1.00[CEU][hapmap];0.91[JPT][hapmap]
rs1688782	0.82[JPT][hapmap]
rs17379739	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17392948	0.93[CEU][hapmap];1.00[YRI][hapmap];0.81[AMR][1000 genomes]
rs17393059	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2291494	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2291495	0.84[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2452320	0.82[JPT][hapmap]
rs2452321	0.82[JPT][hapmap]
rs28503408	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs28714363	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs28870092	0.83[AFR][1000 genomes];0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs34922392	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs34996634	0.81[AMR][1000 genomes]
rs35154249	0.81[AMR][1000 genomes]
rs35521705	0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs35669453	0.84[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs35844878	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs35885423	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4075038	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap]
rs4244711	0.82[JPT][hapmap]
rs4244713	0.81[CHB][hapmap]
rs4279135	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4361315	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap]
rs4479633	0.82[JPT][hapmap]
rs4571265	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4928149	0.93[CEU][hapmap];1.00[YRI][hapmap]
rs4928232	0.81[CHB][hapmap];0.82[JPT][hapmap]
rs4928234	0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs62285461	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62285462	0.84[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62285471	0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62285473	0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62285478	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6440938	0.82[JPT][hapmap]
rs6765027	0.81[CHB][hapmap];0.82[JPT][hapmap]
rs6790535	0.94[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6790877	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];1.00[YRI][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6799379	0.94[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6802422	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6806178	0.94[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6807176	0.88[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6809988	0.82[JPT][hapmap]
rs704583	0.82[JPT][hapmap]
rs71313585	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7609729	0.90[JPT][hapmap]
rs7610486	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7616988	0.94[CEU][hapmap];0.82[JPT][hapmap]
rs7620228	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7627991	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7629426	0.83[JPT][hapmap]
rs7638900	0.82[JPT][hapmap]
rs793440	0.82[JPT][hapmap]
rs793465	0.82[JPT][hapmap]
rs923470	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs923471	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9289985	0.81[CEU][hapmap];0.82[AMR][1000 genomes]
rs9810235	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9814359	0.94[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9815439	0.94[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9823908	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9828079	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9832186	0.90[CHB][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9833888	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9833980	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9834484	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9841186	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9851645	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9852435	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9853823	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9854260	0.87[CEU][hapmap];0.82[AMR][1000 genomes]
rs9860290	0.87[CEU][hapmap];0.87[AMR][1000 genomes]
rs9864437	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9872871	0.83[JPT][hapmap]
rs9873709	0.94[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9873878	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9875640	0.94[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9875664	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9875878	0.81[CEU][hapmap];0.82[AMR][1000 genomes]
rs9878931	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv817478	chr3:99474086-99955548	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Active TSS ZNF genes & repeats Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
2	nsv916476	chr3:99478229-100124625	Active TSS Weak transcription Flanking Active TSS Strong transcription Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
3	nsv869848	chr3:99652246-99904276	Weak transcription Enhancers ZNF genes & repeats Strong transcription Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	7 gene(s)	inside rSNPs	diseases
4	nsv932634	chr3:99660690-99888854	Enhancers Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
5	nsv1010579	chr3:99660754-99901817	Enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	7 gene(s)	inside rSNPs	diseases
6	nsv1008483	chr3:99660754-99903769	Enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	7 gene(s)	inside rSNPs	diseases
7	nsv1010897	chr3:99660754-99904783	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	7 gene(s)	inside rSNPs	diseases
8	nsv1001529	chr3:99661758-99892654	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	6 gene(s)	inside rSNPs	diseases
9	nsv536665	chr3:99661758-99892654	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	6 gene(s)	inside rSNPs	diseases
10	nsv591148	chr3:99774720-99905803	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:70 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:99795800-99866600	Weak transcription	Primary T cells from cord blood	blood
2	chr3:99817600-99825000	Weak transcription	Placenta	Placenta
3	chr3:99818000-99836600	Weak transcription	Primary B cells from cord blood	blood
4	chr3:99820200-99825000	Weak transcription	Placenta Amnion	Placenta Amnion
5	chr3:99821600-99825200	Enhancers	HSMMtube	muscle
6	chr3:99821600-99826200	Enhancers	HepG2	liver
7	chr3:99821800-99826400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
8	chr3:99821800-99826400	Enhancers	Fetal Lung	lung
9	chr3:99821800-99826400	Enhancers	Fetal Stomach	stomach
10	chr3:99821800-99826400	Enhancers	Osteobl	bone
11	chr3:99821800-99826800	Enhancers	Fetal Kidney	kidney
12	chr3:99821800-99827800	Enhancers	Stomach Smooth Muscle	stomach
13	chr3:99822200-99825000	Weak transcription	Fetal Heart	heart
14	chr3:99822200-99826400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
15	chr3:99822400-99826400	Enhancers	NHLF	lung
16	chr3:99822400-99827000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
17	chr3:99822600-99826400	Enhancers	Stomach Mucosa	stomach
18	chr3:99822600-99827400	Enhancers	Duodenum Smooth Muscle	Duodenum
19	chr3:99822600-99828000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
20	chr3:99822800-99826200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
21	chr3:99822800-99827600	Enhancers	Rectal Smooth Muscle	rectum
22	chr3:99822800-99827800	Enhancers	Fetal Intestine Large	intestine
23	chr3:99822800-99828000	Enhancers	Fetal Intestine Small	intestine
24	chr3:99823000-99825000	Weak transcription	Aorta	Aorta
25	chr3:99823000-99826600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
26	chr3:99823000-99828000	Enhancers	Colon Smooth Muscle	Colon
27	chr3:99823200-99825000	Weak transcription	Left Ventricle	heart
28	chr3:99823200-99826000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
29	chr3:99823200-99827400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
30	chr3:99823400-99825400	Enhancers	Dnd41	blood
31	chr3:99823400-99826000	Enhancers	Rectal Mucosa Donor 31	rectum
32	chr3:99823400-99828000	Enhancers	Primary neutrophils fromperipheralblood	blood
33	chr3:99823600-99824800	Weak transcription	Sigmoid Colon	Sigmoid Colon
34	chr3:99823600-99825000	Weak transcription	Esophagus	oesophagus
35	chr3:99823600-99825000	Weak transcription	Psoas Muscle	Psoas
36	chr3:99823600-99825000	Weak transcription	Right Atrium	heart
37	chr3:99823600-99825000	Weak transcription	Spleen	Spleen
38	chr3:99823600-99825400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
39	chr3:99823600-99826800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
40	chr3:99823600-99827400	Weak transcription	Gastric	stomach
41	chr3:99823600-99837200	Weak transcription	Pancreas	Pancrea
42	chr3:99823800-99824800	Weak transcription	Small Intestine	intestine
43	chr3:99823800-99825200	Enhancers	K562	blood
44	chr3:99823800-99825400	Weak transcription	NH-A	brain
45	chr3:99823800-99826000	Weak transcription	Liver	Liver
46	chr3:99823800-99826200	Enhancers	Hela-S3	cervix
47	chr3:99823800-99826400	Enhancers	A549	lung
48	chr3:99823800-99826600	Enhancers	NHEK	skin
49	chr3:99823800-99827400	Enhancers	Pancreatic Islets	Pancreatic Islet
50	chr3:99824000-99825600	Enhancers	ES-I3 Cell Line	embryonic stem cell

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