Variant report

Variant	rs5972234
Chromosome Location	chrX:29507387-29507388
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 41 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs1014721	0.95[CEU][hapmap];0.81[CHB][hapmap]
rs12862650	0.95[CEU][hapmap];0.93[CHB][hapmap];0.96[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.83[MEX][hapmap];0.97[TSI][hapmap]
rs2050063	0.95[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap]
rs2050064	0.95[CEU][hapmap];0.93[CHB][hapmap];0.96[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.83[MEX][hapmap];0.97[TSI][hapmap]
rs4829188	0.95[CEU][hapmap];0.81[CHB][hapmap]
rs4829190	0.95[CEU][hapmap];0.81[CHB][hapmap];0.86[CHD][hapmap];0.91[TSI][hapmap]
rs4829197	0.81[CHB][hapmap];0.82[TSI][hapmap]
rs5971494	0.95[CEU][hapmap];0.85[CHD][hapmap];0.94[TSI][hapmap]
rs5971496	0.94[CEU][hapmap];0.81[CHB][hapmap]
rs5971497	0.95[CEU][hapmap];0.81[CHB][hapmap]
rs5971499	0.95[CEU][hapmap];0.81[CHB][hapmap]
rs5971500	0.95[CEU][hapmap];0.81[CHB][hapmap]
rs5971515	0.92[CHB][hapmap];1.00[JPT][hapmap]
rs5971516	0.80[CEU][hapmap];0.93[CHB][hapmap];0.86[CHD][hapmap];1.00[JPT][hapmap];0.85[TSI][hapmap]
rs5971517	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap]
rs5972128	0.84[CEU][hapmap]
rs5972176	0.95[CEU][hapmap]
rs5972233	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs5972236	0.92[CHB][hapmap];1.00[JPT][hapmap]
rs5972238	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs5972241	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];0.93[GIH][hapmap];0.93[JPT][hapmap];1.00[MEX][hapmap];0.93[MKK][hapmap];0.97[TSI][hapmap]
rs5972254	0.81[CHB][hapmap]
rs6526863	0.82[TSI][hapmap]
rs6526869	0.87[CHB][hapmap];0.93[JPT][hapmap]
rs6526871	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.87[MKK][hapmap];1.00[TSI][hapmap]
rs6628425	0.84[CEU][hapmap]
rs6628428	0.84[CEU][hapmap]
rs6628429	0.84[CEU][hapmap]
rs6630860	0.84[CEU][hapmap]
rs6630883	0.92[CHB][hapmap]
rs7063024	0.94[CEU][hapmap];0.81[CHB][hapmap];0.86[CHD][hapmap];0.81[JPT][hapmap];0.88[TSI][hapmap]
rs7063105	0.87[CHB][hapmap];0.93[JPT][hapmap]
rs7065566	0.85[CEU][hapmap];0.83[TSI][hapmap]
rs7065783	0.85[CEU][hapmap];0.83[TSI][hapmap]
rs7066818	0.87[CHB][hapmap];1.00[JPT][hapmap]
rs715328	0.95[CEU][hapmap];0.81[CHB][hapmap];0.86[CHD][hapmap];0.94[TSI][hapmap]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv432292	chrX:29109744-29845461	Flanking Active TSS Enhancers Weak transcription Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA	3 gene(s)	inside rSNPs	diseases
2	nsv531754	chrX:29147023-29533186	Bivalent Enhancer Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
3	nsv531766	chrX:29225499-29928832	Enhancers Active TSS Bivalent Enhancer Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	3 gene(s)	inside rSNPs	diseases
4	nsv948944	chrX:29398264-29902917	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Strong transcription	TF binding region Chromatin interactive region miRNA	2 gene(s)	inside rSNPs	diseases
5	nsv869450	chrX:29433295-29940875	Weak transcription Enhancers Bivalent/Poised TSS Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers ZNF genes & repeats Strong transcription	TF binding region Chromatin interactive region lncRNA miRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chrX:29504200-29507400	Enhancers	Primary monocytes fromperipheralblood	blood
2	chrX:29505600-29507400	Enhancers	Monocytes-CD14+_RO01746	blood
3	chrX:29507000-29507400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
4	chrX:29507000-29507400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
5	chrX:29507000-29507400	Enhancers	Fetal Heart	heart
6	chrX:29507200-29507600	Flanking Active TSS	GM12878-XiMat	blood

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