Variant report

Variant	rs13075944
Chromosome Location	chr3:105214789-105214790
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs10446293	0.85[YRI][hapmap]
rs12496827	0.88[EUR][1000 genomes]
rs13065937	0.87[CHB][hapmap];0.90[JPT][hapmap];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs13070223	0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13070790	0.81[CHB][hapmap];0.85[JPT][hapmap];0.88[EUR][1000 genomes]
rs13077096	0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs13079517	0.91[CHB][hapmap];0.90[JPT][hapmap];0.84[EUR][1000 genomes]
rs13079993	0.88[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs13085657	0.86[CHB][hapmap];0.90[JPT][hapmap];0.88[EUR][1000 genomes]
rs13092913	0.82[CHB][hapmap];0.84[JPT][hapmap];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs13095691	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1438549	0.86[CHB][hapmap];0.84[JPT][hapmap];0.84[EUR][1000 genomes]
rs1438551	0.87[CHB][hapmap];0.90[JPT][hapmap];0.84[EUR][1000 genomes]
rs16851097	0.82[EUR][1000 genomes]
rs16851175	0.82[CEU][hapmap];0.91[CHB][hapmap];0.90[JPT][hapmap];0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2399046	0.82[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs34198525	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs35616213	0.90[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs4894926	0.87[CHB][hapmap];0.90[JPT][hapmap];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4894928	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs66713063	0.88[EUR][1000 genomes]
rs7431148	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs976530	0.83[CEU][hapmap];0.91[CHB][hapmap];0.90[JPT][hapmap];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 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
3	nsv534224	chr3:105141696-105404293	Weak transcription Strong transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
4	nsv829651	chr3:105203424-105402136	Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
5	nsv460811	chr3:105212993-105316769	Strong transcription Weak transcription Genic enhancers Enhancers Active TSS ZNF genes & repeats Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	1 gene(s)	inside rSNPs	diseases
6	nsv591240	chr3:105212993-105316769	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:40 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:105193000-105215400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr3:105210000-105223000	Weak transcription	Gastric	stomach
3	chr3:105210200-105215600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr3:105210200-105218400	Weak transcription	A549	lung
5	chr3:105210200-105218800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
6	chr3:105210200-105220600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
7	chr3:105210200-105220800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
8	chr3:105210200-105221200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr3:105210200-105222000	Weak transcription	NH-A	brain
10	chr3:105210200-105223800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
11	chr3:105210200-105229000	Weak transcription	HSMM	muscle
12	chr3:105210200-105243200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
13	chr3:105210400-105214800	Weak transcription	Primary hematopoietic stem cells	blood
14	chr3:105210400-105215200	Weak transcription	HUES64 Cell Line	embryonic stem cell
15	chr3:105210400-105215200	Weak transcription	Primary neutrophils fromperipheralblood	blood
16	chr3:105210400-105219600	Weak transcription	Muscle Satellite Cultured Cells	--
17	chr3:105210600-105218200	Weak transcription	Pancreatic Islets	Pancreatic Islet
18	chr3:105210600-105219600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
19	chr3:105210600-105223200	Weak transcription	H1 Cell Line	embryonic stem cell
20	chr3:105210800-105215400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
21	chr3:105210800-105222400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
22	chr3:105212400-105215200	Weak transcription	H9 Cell Line	embryonic stem cell
23	chr3:105213200-105216000	Enhancers	Brain Substantia Nigra	brain
24	chr3:105213200-105216000	Enhancers	Fetal Heart	heart
25	chr3:105213400-105214800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
26	chr3:105213600-105215800	Enhancers	Brain Cingulate Gyrus	brain
27	chr3:105213800-105215400	Enhancers	Liver	Liver
28	chr3:105213800-105215600	Enhancers	Brain Inferior Temporal Lobe	brain
29	chr3:105213800-105219600	Weak transcription	Aorta	Aorta
30	chr3:105214200-105214800	Enhancers	HepG2	liver
31	chr3:105214200-105215200	Weak transcription	Brain Anterior Caudate	brain
32	chr3:105214200-105215800	Enhancers	Brain Hippocampus Middle	brain
33	chr3:105214200-105218800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
34	chr3:105214200-105220000	Weak transcription	Osteobl	bone
35	chr3:105214400-105214800	Weak transcription	Brain Angular Gyrus	brain
36	chr3:105214400-105215600	Enhancers	Cortex derived primary cultured neurospheres	brain
37	chr3:105214400-105218600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
38	chr3:105214400-105219600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
39	chr3:105214400-105220600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
40	chr3:105214600-105215600	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived

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