Variant report

Variant	rs13085339
Chromosome Location	chr3:159528487-159528488
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	MYC	chr3:159528443-159528592	MCF10A-Er-Src	breast:	n/a	n/a

Variant related genes	Relation type
RNU2-31P	TF binding region

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:28)

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];0.89[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13067050	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][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];0.97[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]
rs13088481	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs13088959	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]
rs13100614	0.91[CEU][hapmap];0.89[CHB][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];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2076889	0.92[CEU][hapmap];1.00[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];0.81[CHB][hapmap];1.00[YRI][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]
rs71625413	1.00[AMR][1000 genomes];0.81[EUR][1000 genomes]

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:159518400-159531200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr3:159518800-159531800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr3:159523000-159531800	Weak transcription	Right Atrium	heart
4	chr3:159523000-159536200	Weak transcription	Cortex derived primary cultured neurospheres	brain
5	chr3:159523400-159531600	Weak transcription	A549	lung
6	chr3:159523400-159532000	Weak transcription	Stomach Mucosa	stomach
7	chr3:159523400-159533000	Weak transcription	Osteobl	bone
8	chr3:159523400-159537800	Weak transcription	NH-A	brain
9	chr3:159523400-159541200	Weak transcription	Fetal Kidney	kidney
10	chr3:159523400-159541400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
11	chr3:159524200-159531800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
12	chr3:159524600-159531400	Weak transcription	Fetal Muscle Trunk	muscle
13	chr3:159524600-159535800	Weak transcription	Aorta	Aorta
14	chr3:159524600-159538600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
15	chr3:159525200-159531400	Weak transcription	HSMM	muscle
16	chr3:159525200-159531600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
17	chr3:159525600-159530800	Weak transcription	HMEC	breast
18	chr3:159525600-159540600	Weak transcription	NHLF	lung
19	chr3:159525800-159529200	Weak transcription	Brain Angular Gyrus	brain
20	chr3:159525800-159530200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
21	chr3:159525800-159530600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
22	chr3:159525800-159531200	Weak transcription	NHEK	skin
23	chr3:159525800-159531600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
24	chr3:159525800-159531600	Weak transcription	Brain Anterior Caudate	brain
25	chr3:159525800-159531800	Weak transcription	Left Ventricle	heart
26	chr3:159525800-159536400	Weak transcription	NHDF-Ad	bronchial
27	chr3:159525800-159539400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
28	chr3:159526200-159531000	Weak transcription	Brain Hippocampus Middle	brain
29	chr3:159526400-159531400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
30	chr3:159526400-159531800	Weak transcription	Skeletal Muscle Male	skeletal muscle
31	chr3:159526400-159531800	Weak transcription	Stomach Smooth Muscle	stomach
32	chr3:159526400-159535600	Weak transcription	Colon Smooth Muscle	Colon
33	chr3:159526400-159541400	Weak transcription	Rectal Smooth Muscle	rectum
34	chr3:159526600-159530600	Weak transcription	Brain Cingulate Gyrus	brain
35	chr3:159526600-159531600	Weak transcription	Fetal Muscle Leg	muscle
36	chr3:159526600-159532000	Weak transcription	Fetal Stomach	stomach
37	chr3:159526600-159534400	Weak transcription	Adipose Nuclei	Adipose
38	chr3:159526800-159531600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
39	chr3:159528200-159528800	Enhancers	Brain Substantia Nigra	brain
40	chr3:159528400-159529000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin

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