Variant report

Variant	rs12662357
Chromosome Location	chr6:73905911-73905912
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 45 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs1055745	0.86[ASN][1000 genomes]
rs12660923	1.00[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];0.93[ASN][1000 genomes]
rs12661161	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12661261	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12662303	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12662682	1.00[CEU][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12662788	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12662803	1.00[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];0.93[ASN][1000 genomes]
rs12662818	1.00[CEU][hapmap];0.82[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]
rs12662845	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12664116	1.00[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];0.93[ASN][1000 genomes]
rs16883459	1.00[CEU][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs16883468	1.00[CEU][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs16883471	1.00[CEU][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs16883483	1.00[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]
rs16883489	1.00[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]
rs34320997	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs35791353	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3799279	0.80[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs3799281	1.00[CEU][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs3799282	1.00[CEU][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs3799283	1.00[CEU][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs3799284	1.00[CEU][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs3799285	1.00[CEU][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs3799287	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3823120	1.00[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]
rs41265511	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4631235	1.00[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];0.93[ASN][1000 genomes]
rs56941368	0.80[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs57258907	1.00[ASN][1000 genomes]
rs57781909	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs57919814	0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs58424716	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58519898	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59789863	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs60111089	0.80[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs60710559	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs60998603	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs61240728	0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6453658	0.86[CHB][hapmap]
rs6919519	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs7771861	0.86[CHB][hapmap];1.00[JPT][hapmap];0.80[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3410973	chr6:73716033-74419545	Active TSS Bivalent Enhancer Flanking Active TSS Weak transcription Enhancers Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	191 gene(s)	inside rSNPs	diseases
2	nsv1022151	chr6:73876795-73996828	Weak transcription Active TSS Flanking Active TSS Enhancers Strong transcription Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
3	nsv538304	chr6:73876795-73996828	Flanking Active TSS Weak transcription Genic enhancers Enhancers Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:73891000-73909600	Weak transcription	HSMMtube	muscle
2	chr6:73901000-73910200	Weak transcription	Skeletal Muscle Female	skeletal muscle
3	chr6:73902200-73906200	Weak transcription	Primary T cells fromperipheralblood	blood
4	chr6:73902200-73910200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
5	chr6:73902800-73916600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
6	chr6:73903000-73906800	Weak transcription	Brain Angular Gyrus	brain
7	chr6:73903000-73910400	Weak transcription	HSMM	muscle
8	chr6:73903000-73912200	Weak transcription	Thymus	Thymus
9	chr6:73903400-73907000	Weak transcription	Fetal Brain Female	brain
10	chr6:73903400-73907800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
11	chr6:73903600-73906000	Strong transcription	Primary T cells from cord blood	blood
12	chr6:73903600-73907000	Enhancers	Primary neutrophils fromperipheralblood	blood
13	chr6:73903600-73907600	Strong transcription	Primary hematopoietic stem cells short term culture	blood
14	chr6:73903800-73906400	Strong transcription	Primary B cells from cord blood	blood
15	chr6:73903800-73910600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
16	chr6:73904000-73907800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
17	chr6:73904200-73906200	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
18	chr6:73904200-73906600	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
19	chr6:73904600-73906600	Weak transcription	Gastric	stomach
20	chr6:73904800-73906800	Weak transcription	Primary B cells from peripheral blood	blood
21	chr6:73904800-73910600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
22	chr6:73905000-73906600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
23	chr6:73905000-73906600	Weak transcription	Dnd41	blood
24	chr6:73905000-73914000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
25	chr6:73905200-73906800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
26	chr6:73905200-73906800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
27	chr6:73905200-73907600	Weak transcription	Aorta	Aorta
28	chr6:73905400-73907000	Weak transcription	Primary hematopoietic stem cells	blood
29	chr6:73905400-73908400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
30	chr6:73905400-73910000	Weak transcription	Skeletal Muscle Male	skeletal muscle

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