Variant report

Variant	rs3801281
Chromosome Location	chr7:104889573-104889574
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr7:104887620..104890465-chr7:104961186..104963915,2	MCF-7	breast:
2	chr7:104887469..104889589-chr7:104895549..104898099,2	MCF-7	breast:
3	chr7:104888158..104889704-chr7:104889723..104891275,2	MCF-7	breast:

Extended variants
information (count: 99 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:90)

rs_ID	r²[population]
rs10227302	0.80[AMR][1000 genomes];0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10238507	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap]
rs10241415	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10257135	1.00[YRI][hapmap];0.89[AFR][1000 genomes]
rs10266871	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap]
rs10277120	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10281422	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10281886	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10487150	0.95[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap]
rs10953468	0.82[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap]
rs10953470	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.91[YRI][hapmap];0.95[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10953474	0.95[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1121194	0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1142	0.81[CEU][hapmap];0.83[JPT][hapmap]
rs1144	0.81[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap]
rs11761429	0.80[ASN][1000 genomes]
rs11765899	0.91[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11980772	0.88[ASN][1000 genomes]
rs1204056	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1204058	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1204060	0.83[AFR][1000 genomes];0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1204066	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1204077	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1204078	0.82[AFR][1000 genomes];0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1204080	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12334245	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12668040	0.88[CHB][hapmap];0.93[JPT][hapmap];0.88[ASN][1000 genomes]
rs12668097	0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12671047	0.80[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12705304	0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12705306	0.84[AFR][1000 genomes];0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12705308	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13226540	0.84[EUR][1000 genomes]
rs13235033	0.94[JPT][hapmap]
rs13238191	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13239067	0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs17721873	0.93[JPT][hapmap]
rs2030776	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2040914	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2057883	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2057884	0.82[CEU][hapmap];0.88[JPT][hapmap];0.87[EUR][1000 genomes]
rs2237612	0.93[JPT][hapmap];0.83[ASN][1000 genomes]
rs2237613	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2237617	0.81[JPT][hapmap]
rs2240463	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2299304	0.90[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap]
rs2299308	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2299316	0.80[ASN][1000 genomes]
rs2299319	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2385537	0.90[YRI][hapmap]
rs34387062	0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs35601145	0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs35757884	0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3779210	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs3801278	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3801282	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3801285	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3801999	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3823751	0.84[ASN][1000 genomes]
rs41562	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs41563	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4496901	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4727621	0.80[AMR][1000 genomes];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4730072	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4730073	0.90[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4730076	0.90[YRI][hapmap];0.82[AFR][1000 genomes]
rs4730080	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4730081	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4730082	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs62484712	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6466053	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6466055	0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6466056	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6466057	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6466064	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs66599006	0.95[AFR][1000 genomes];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6943183	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6950620	0.90[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap]
rs6962856	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AFR][1000 genomes];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6967587	0.82[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap]
rs7357199	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7789569	0.95[ASN][1000 genomes]
rs7797912	0.90[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap]
rs7800928	0.82[AFR][1000 genomes];0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7801804	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7806591	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7811681	0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs917114	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9640686	0.95[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9649275	0.86[EUR][1000 genomes];0.93[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	esv34588	chr7:104737612-105153242	Enhancers Strong transcription Weak transcription Flanking Active TSS Genic enhancers Active TSS Bivalent/Poised 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	17 gene(s)	inside rSNPs	diseases
2	esv2757233	chr7:104758250-105208492	Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
3	esv2759549	chr7:104758250-105208492	Flanking Active TSS Weak transcription Enhancers Strong transcription Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
4	nsv8196	chr7:104763559-105155978	Enhancers Weak transcription Active TSS Strong transcription Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
5	esv34580	chr7:104763580-105153242	Enhancers Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
6	esv2758127	chr7:104766707-105110581	Enhancers Strong transcription Active TSS Flanking Active TSS Weak transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
7	nsv1028228	chr7:104807207-105182998	Weak transcription Enhancers Flanking Active TSS Genic enhancers Strong transcription Active TSS ZNF genes & repeats Bivalent Enhancer 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	39 gene(s)	inside rSNPs	diseases
8	nsv932138	chr7:104826194-105152816	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Strong transcription Bivalent Enhancer 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 target site	15 gene(s)	inside rSNPs	diseases
9	nsv1015688	chr7:104849770-105182998	Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS 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	38 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:75 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:104869200-104892000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
2	chr7:104869600-104909200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr7:104872200-104897200	Weak transcription	Primary T cells from cord blood	blood
4	chr7:104875000-104893800	Genic enhancers	Dnd41	blood
5	chr7:104877200-104898400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
6	chr7:104879000-104890800	Weak transcription	Aorta	Aorta
7	chr7:104879000-104891800	Weak transcription	H9 Cell Line	embryonic stem cell
8	chr7:104879000-104907800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
9	chr7:104879600-104897400	Weak transcription	Primary T helper cells fromperipheralblood	blood
10	chr7:104879800-104896800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
11	chr7:104882400-104892400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
12	chr7:104885400-104907000	Weak transcription	Fetal Intestine Small	intestine
13	chr7:104886000-104902200	Weak transcription	Lung	lung
14	chr7:104886200-104891400	Weak transcription	H1 Cell Line	embryonic stem cell
15	chr7:104886400-104890400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
16	chr7:104886400-104893200	Weak transcription	Left Ventricle	heart
17	chr7:104886400-104916600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
18	chr7:104886600-104890800	Weak transcription	Primary B cells from cord blood	blood
19	chr7:104886600-104892200	Weak transcription	HUVEC	blood vessel
20	chr7:104886600-104895200	Weak transcription	Pancreas	Pancrea
21	chr7:104886600-104896800	Weak transcription	Right Atrium	heart
22	chr7:104886800-104889600	Weak transcription	Osteobl	bone
23	chr7:104886800-104891000	Weak transcription	Fetal Stomach	stomach
24	chr7:104886800-104898000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
25	chr7:104887000-104891000	Weak transcription	Fetal Kidney	kidney
26	chr7:104887000-104891800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
27	chr7:104887000-104897200	Weak transcription	Muscle Satellite Cultured Cells	--
28	chr7:104887200-104897400	Weak transcription	Duodenum Smooth Muscle	Duodenum
29	chr7:104887400-104891400	Weak transcription	Brain Germinal Matrix	brain
30	chr7:104887400-104893800	Weak transcription	Skeletal Muscle Male	skeletal muscle
31	chr7:104887400-104896800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
32	chr7:104887600-104889800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
33	chr7:104887600-104890000	Weak transcription	Pancreatic Islets	Pancreatic Islet
34	chr7:104887600-104890800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
35	chr7:104887600-104890800	Weak transcription	Colon Smooth Muscle	Colon
36	chr7:104887600-104891200	Weak transcription	HUES64 Cell Line	embryonic stem cell
37	chr7:104887600-104891200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
38	chr7:104887600-104891800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
39	chr7:104887600-104891800	Weak transcription	Fetal Thymus	thymus
40	chr7:104887600-104892000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
41	chr7:104887600-104892000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
42	chr7:104887600-104897200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
43	chr7:104887600-104897200	Weak transcription	HSMM	muscle
44	chr7:104887800-104890600	Weak transcription	Brain Angular Gyrus	brain
45	chr7:104887800-104890800	Weak transcription	HUES48 Cell Line	embryonic stem cell
46	chr7:104887800-104890800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
47	chr7:104887800-104892600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
48	chr7:104887800-104893400	Weak transcription	Fetal Lung	lung
49	chr7:104887800-104895800	Weak transcription	Thymus	Thymus
50	chr7:104887800-104897200	Weak transcription	K562	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links