Variant report

Variant	rs3827455
Chromosome Location	chrX:31527269-31527270
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs10521969	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10521976	1.00[JPT][hapmap]
rs12687271	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12687451	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12687453	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12687510	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[TSI][hapmap]
rs12687514	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap]
rs12689288	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap]
rs1497441	1.00[JPT][hapmap]
rs16989651	1.00[CEU][hapmap];0.87[TSI][hapmap]
rs16989652	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap]
rs16989672	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap]
rs16989684	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.94[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.90[YRI][hapmap]
rs16989685	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.94[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap]
rs16989687	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.89[LWK][hapmap];1.00[MEX][hapmap];0.88[MKK][hapmap];1.00[TSI][hapmap];0.90[YRI][hapmap]
rs16998200	1.00[CHB][hapmap]
rs17283225	1.00[JPT][hapmap]
rs4478725	1.00[JPT][hapmap]
rs5971585	1.00[JPT][hapmap]
rs5971593	1.00[JPT][hapmap]
rs5972417	1.00[JPT][hapmap]
rs5972419	1.00[JPT][hapmap]
rs5972422	1.00[JPT][hapmap]
rs5972426	1.00[JPT][hapmap]
rs6527109	1.00[JPT][hapmap]
rs6631344	1.00[CHB][hapmap];1.00[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869389	chrX:31207964-31963300	Weak transcription Strong transcription Bivalent/Poised TSS Flanking Active TSS Enhancers Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	nsv481896	chrX:31212683-31546984	Weak transcription Active TSS Flanking Active TSS Enhancers Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	esv3407256	chrX:31214281-31548379	Enhancers Weak transcription Active TSS Bivalent/Poised TSS Flanking Active TSS Strong transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	nsv481964	chrX:31270220-31672751	Enhancers Weak transcription Active TSS Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv491930	chrX:31449215-31543991	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	nsv531098	chrX:31462522-31824884	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
7	nsv481719	chrX:31470100-31807209	Enhancers Weak transcription Active TSS ZNF genes & repeats Strong transcription Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
8	nsv525349	chrX:31491980-31527555	Enhancers Weak transcription Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
9	nsv527085	chrX:31491980-31577462	Enhancers Weak transcription Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
10	nsv522266	chrX:31502157-31554545	Enhancers Weak transcription Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chrX:31524200-31527400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
2	chrX:31525200-31529200	Enhancers	Fetal Heart	heart
3	chrX:31525400-31527400	Enhancers	Brain Hippocampus Middle	brain
4	chrX:31526000-31527400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
5	chrX:31526000-31527400	Enhancers	HMEC	breast
6	chrX:31526000-31527400	Enhancers	Osteobl	bone
7	chrX:31526000-31527600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
8	chrX:31526000-31528200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chrX:31526000-31528400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
10	chrX:31526200-31527400	Enhancers	Brain Substantia Nigra	brain
11	chrX:31526200-31528200	Weak transcription	Cortex derived primary cultured neurospheres	brain
12	chrX:31526200-31528600	Enhancers	Breast Myoepithelial Primary Cells	Breast
13	chrX:31526400-31527400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
14	chrX:31526400-31527400	Enhancers	NH-A	brain
15	chrX:31526400-31527600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
16	chrX:31526400-31527600	Enhancers	Muscle Satellite Cultured Cells	--
17	chrX:31526400-31528400	Enhancers	Fetal Lung	lung
18	chrX:31526600-31527400	Active TSS	Brain Anterior Caudate	brain
19	chrX:31526600-31528200	Enhancers	Brain Cingulate Gyrus	brain
20	chrX:31527000-31527400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
21	chrX:31527000-31527400	Flanking Active TSS	Brain Angular Gyrus	brain
22	chrX:31527200-31528000	Weak transcription	Colon Smooth Muscle	Colon

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