Variant report

Variant	rs6437583
Chromosome Location	chr3:105073639-105073640
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:105072055..105074262-chr3:105075883..105078714,2	MCF-7	breast:

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs12496827	0.82[ASN][1000 genomes]
rs12497260	1.00[CEU][hapmap];0.90[JPT][hapmap];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13065937	0.91[CHB][hapmap]
rs13070790	0.95[CHB][hapmap];0.82[ASN][1000 genomes]
rs13075944	0.87[CHB][hapmap]
rs13079517	0.91[CHB][hapmap]
rs13085657	0.91[CHB][hapmap];0.80[ASN][1000 genomes]
rs13092913	0.91[CHB][hapmap]
rs13095216	0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13095274	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1438544	0.81[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs1438546	0.81[AMR][1000 genomes]
rs1438549	0.95[CHB][hapmap];0.83[ASN][1000 genomes]
rs1438551	0.91[CHB][hapmap];0.81[ASN][1000 genomes]
rs1438553	0.90[ASN][1000 genomes]
rs1438554	0.83[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs16851097	0.82[ASN][1000 genomes]
rs16851175	0.91[CHB][hapmap]
rs2399046	0.95[CHB][hapmap]
rs4589964	0.84[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs4894926	0.91[CHB][hapmap]
rs55934921	0.81[AMR][1000 genomes]
rs62262153	0.82[AFR][1000 genomes];0.85[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs6437579	0.80[AMR][1000 genomes]
rs6437582	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6437584	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs66713063	0.80[ASN][1000 genomes]
rs6773531	0.80[AMR][1000 genomes]
rs6793758	0.81[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs6797065	0.81[AMR][1000 genomes]
rs6797259	0.81[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs6804633	0.81[AMR][1000 genomes]
rs7611398	0.81[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs7620029	0.81[AMR][1000 genomes]
rs7620713	0.81[AMR][1000 genomes]
rs7626665	0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7634168	0.92[ASN][1000 genomes]
rs7635959	0.84[AMR][1000 genomes]
rs9288801	0.81[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs976530	0.91[CHB][hapmap]
rs9852729	0.84[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs9869867	0.81[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs9880342	0.82[AFR][1000 genomes];0.84[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs9883403	0.81[AMR][1000 genomes];0.81[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv525071	chr3:105004853-105409321	Enhancers Strong transcription Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
2	nsv829650	chr3:105070893-105255036	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent/Poised TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:53 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:105068600-105074600	Enhancers	HMEC	breast
2	chr3:105071000-105078200	Weak transcription	A549	lung
3	chr3:105071800-105074600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr3:105072200-105073800	Flanking Active TSS	HUVEC	blood vessel
5	chr3:105072400-105073800	Flanking Active TSS	NH-A	brain
6	chr3:105072800-105073800	Bivalent/Poised TSS	Psoas Muscle	Psoas
7	chr3:105072800-105075000	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
8	chr3:105073000-105073800	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
9	chr3:105073000-105078600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
10	chr3:105073000-105081200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
11	chr3:105073200-105073800	Flanking Bivalent TSS/Enh	HUES48 Cell Line	embryonic stem cell
12	chr3:105073200-105073800	Enhancers	Fetal Stomach	stomach
13	chr3:105073200-105074400	Weak transcription	Cortex derived primary cultured neurospheres	brain
14	chr3:105073200-105074600	Enhancers	NHDF-Ad	bronchial
15	chr3:105073200-105074800	Enhancers	NHEK	skin
16	chr3:105073200-105076000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
17	chr3:105073400-105073800	Bivalent Enhancer	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
18	chr3:105073400-105073800	Bivalent Enhancer	iPS-18 Cell Line	embryonic stem cell
19	chr3:105073400-105074000	Enhancers	H9 Cell Line	embryonic stem cell
20	chr3:105073400-105074200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
21	chr3:105073400-105074800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
22	chr3:105073400-105074800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
23	chr3:105073400-105075000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
24	chr3:105073400-105075000	Enhancers	Muscle Satellite Cultured Cells	--
25	chr3:105073400-105075200	Weak transcription	Brain Inferior Temporal Lobe	brain
26	chr3:105073400-105075400	Weak transcription	Brain Substantia Nigra	brain
27	chr3:105073400-105076200	Enhancers	Monocytes-CD14+_RO01746	blood
28	chr3:105073400-105084400	Weak transcription	Aorta	Aorta
29	chr3:105073600-105073800	Flanking Active TSS	ES-I3 Cell Line	embryonic stem cell
30	chr3:105073600-105073800	Flanking Active TSS	ES-WA7 Cell Line	embryonic stem cell
31	chr3:105073600-105073800	Flanking Active TSS	HUES6 Cell Line	embryonic stem cell
32	chr3:105073600-105073800	Flanking Active TSS	HUES64 Cell Line	embryonic stem cell
33	chr3:105073600-105073800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
34	chr3:105073600-105074000	Bivalent Enhancer	iPS-15b Cell Line	embryonic stem cell
35	chr3:105073600-105074000	Weak transcription	Placenta Amnion	Placenta Amnion
36	chr3:105073600-105074400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
37	chr3:105073600-105074400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
38	chr3:105073600-105074400	Weak transcription	Fetal Kidney	kidney
39	chr3:105073600-105074600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
40	chr3:105073600-105074600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
41	chr3:105073600-105074600	Enhancers	HSMM	muscle
42	chr3:105073600-105074600	Enhancers	HSMMtube	muscle
43	chr3:105073600-105074800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
44	chr3:105073600-105075000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
45	chr3:105073600-105075000	Enhancers	NHLF	lung
46	chr3:105073600-105075000	Enhancers	Osteobl	bone
47	chr3:105073600-105075400	Weak transcription	Brain Hippocampus Middle	brain
48	chr3:105073600-105075600	Weak transcription	Brain Cingulate Gyrus	brain
49	chr3:105073600-105075600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
50	chr3:105073600-105075800	Weak transcription	Brain Anterior Caudate	brain

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