Variant report

Variant	rs13088959
Chromosome Location	chr3:159532169-159532170
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:159531580..159534409-chr3:159536227..159539065,5	MCF-7	breast:
2	chr3:158984351..158984954-chr3:159531627..159532265,2	MCF-7	breast:
3	chr3:159504230..159507022-chr3:159529536..159532354,2	MCF-7	breast:

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

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs12629172	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12631468	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13064339	0.91[CEU][hapmap];1.00[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs13065938	0.91[CEU][hapmap];1.00[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs13065987	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13066560	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13067050	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13072356	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs13075534	0.91[CEU][hapmap];0.90[CHB][hapmap];1.00[YRI][hapmap];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs13078322	0.91[CEU][hapmap];1.00[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs13080307	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13080768	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13085339	0.81[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13088481	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs13100614	0.91[CEU][hapmap];1.00[YRI][hapmap];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs16830741	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs16830748	0.91[CEU][hapmap];0.90[CHB][hapmap];1.00[YRI][hapmap];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2076889	0.91[CEU][hapmap];0.91[CHB][hapmap];0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs34682429	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35035161	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs35165740	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35527279	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35792854	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs3892994	0.83[CEU][hapmap];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs56077320	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs58755984	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs61597037	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6441272	0.90[CHB][hapmap]
rs71625413	1.00[AMR][1000 genomes];0.81[EUR][1000 genomes]

No data

Chromatin state (count:81 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:159523000-159536200	Weak transcription	Cortex derived primary cultured neurospheres	brain
2	chr3:159523400-159533000	Weak transcription	Osteobl	bone
3	chr3:159523400-159537800	Weak transcription	NH-A	brain
4	chr3:159523400-159541200	Weak transcription	Fetal Kidney	kidney
5	chr3:159523400-159541400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
6	chr3:159524600-159535800	Weak transcription	Aorta	Aorta
7	chr3:159524600-159538600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
8	chr3:159525600-159540600	Weak transcription	NHLF	lung
9	chr3:159525800-159536400	Weak transcription	NHDF-Ad	bronchial
10	chr3:159525800-159539400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
11	chr3:159526400-159535600	Weak transcription	Colon Smooth Muscle	Colon
12	chr3:159526400-159541400	Weak transcription	Rectal Smooth Muscle	rectum
13	chr3:159526600-159534400	Weak transcription	Adipose Nuclei	Adipose
14	chr3:159530200-159532800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
15	chr3:159530600-159533200	Enhancers	Brain Cingulate Gyrus	brain
16	chr3:159530800-159533400	Enhancers	HMEC	breast
17	chr3:159531000-159532600	Enhancers	Brain Angular Gyrus	brain
18	chr3:159531200-159532200	Enhancers	Primary hematopoietic stem cells	blood
19	chr3:159531200-159532800	Enhancers	Rectal Mucosa Donor 29	rectum
20	chr3:159531400-159538000	Genic enhancers	Breast Myoepithelial Primary Cells	Breast
21	chr3:159531600-159532200	Enhancers	Brain Anterior Caudate	brain
22	chr3:159531600-159532400	Genic enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
23	chr3:159531600-159532400	Enhancers	Fetal Muscle Leg	muscle
24	chr3:159531600-159532400	Enhancers	HUVEC	blood vessel
25	chr3:159531600-159532600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
26	chr3:159531600-159532600	Enhancers	HUES6 Cell Line	embryonic stem cell
27	chr3:159531600-159532600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
28	chr3:159531600-159532600	Enhancers	Brain Substantia Nigra	brain
29	chr3:159531600-159532600	Enhancers	Skeletal Muscle Female	skeletal muscle
30	chr3:159531600-159532800	Enhancers	Brain Hippocampus Middle	brain
31	chr3:159531600-159533000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
32	chr3:159531600-159533000	Enhancers	Placenta Amnion	Placenta Amnion
33	chr3:159531600-159534600	Enhancers	Rectal Mucosa Donor 31	rectum
34	chr3:159531800-159532200	Enhancers	H1 Cell Line	embryonic stem cell
35	chr3:159531800-159532200	Genic enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
36	chr3:159531800-159532200	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
37	chr3:159531800-159532200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
38	chr3:159531800-159532200	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
39	chr3:159531800-159532200	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
40	chr3:159531800-159532200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
41	chr3:159531800-159532200	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
42	chr3:159531800-159532200	Enhancers	Psoas Muscle	Psoas
43	chr3:159531800-159532200	Enhancers	Skeletal Muscle Male	skeletal muscle
44	chr3:159531800-159532200	Genic enhancers	Stomach Smooth Muscle	stomach
45	chr3:159531800-159532200	Flanking Active TSS	A549	lung
46	chr3:159531800-159532400	Enhancers	ES-WA7 Cell Line	embryonic stem cell
47	chr3:159531800-159532400	Enhancers	H9 Cell Line	embryonic stem cell
48	chr3:159531800-159532400	Enhancers	iPS-15b Cell Line	embryonic stem cell
49	chr3:159531800-159532400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
50	chr3:159531800-159532400	Enhancers	Muscle Satellite Cultured Cells	--

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