Variant report

Variant	rs5965077
Chromosome Location	chrX:65206583-65206584
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:12)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:12 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chrX:64801811..64802462-chrX:65205792..65206776,3	MCF-7	breast:
2	chrX:65201046..65203246-chrX:65205303..65207397,3	K562	blood:
3	chrX:64801590..64802405-chrX:65206033..65206811,2	MCF-7	breast:
4	chrX:65091470..65092062-chrX:65206043..65206722,2	MCF-7	breast:
5	chrX:65200843..65203246-chrX:65204297..65207692,5	K562	blood:
6	chrX:64965575..64966291-chrX:65205794..65206821,4	MCF-7	breast:
7	chrX:65090463..65093471-chrX:65205519..65207713,3	K562	blood:
8	chrX:64808048..64811026-chrX:65205403..65207195,2	K562	blood:
9	chrX:64965542..64966436-chrX:65205648..65206891,7	MCF-7	breast:
10	chrX:64814884..64815934-chrX:65205633..65206707,7	MCF-7	breast:
11	chrX:64962183..64966059-chrX:65203648..65208746,5	K562	blood:
12	chrX:64815169..64815940-chrX:65205601..65206684,6	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000147065	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs1325561	0.86[MEX][hapmap]
rs3848893	1.00[YRI][hapmap]
rs3848897	1.00[CEU][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.92[TSI][hapmap]
rs3848900	1.00[ASW][hapmap];1.00[CHD][hapmap];0.93[GIH][hapmap];0.82[LWK][hapmap];0.93[MEX][hapmap];0.85[MKK][hapmap];0.82[TSI][hapmap];0.93[YRI][hapmap]
rs3848901	0.93[GIH][hapmap];0.93[MEX][hapmap]
rs3903921	1.00[GIH][hapmap];0.93[MEX][hapmap];0.82[TSI][hapmap]
rs4827449	0.86[MEX][hapmap]
rs582787	0.82[TSI][hapmap]
rs585069	0.86[MEX][hapmap];0.82[TSI][hapmap]
rs586789	0.86[MEX][hapmap];0.82[TSI][hapmap]
rs587657	0.86[MEX][hapmap];0.82[TSI][hapmap]
rs5918587	0.86[MEX][hapmap]
rs5918974	0.86[MEX][hapmap]
rs5964466	0.84[CEU][hapmap];0.93[MEX][hapmap]
rs5964480	1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.92[TSI][hapmap]
rs5964482	1.00[ASW][hapmap];0.86[CEU][hapmap];1.00[CHD][hapmap];0.93[GIH][hapmap];0.97[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap]
rs5964483	0.86[CEU][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.92[TSI][hapmap]
rs5964486	1.00[ASW][hapmap];1.00[CHD][hapmap];0.93[GIH][hapmap];0.80[LWK][hapmap];0.93[MEX][hapmap];0.85[MKK][hapmap];0.82[TSI][hapmap];0.93[YRI][hapmap]
rs5964487	0.93[GIH][hapmap];0.93[MEX][hapmap]
rs5964488	0.93[MEX][hapmap]
rs5964489	0.93[YRI][hapmap]
rs5965071	1.00[CEU][hapmap]
rs5965072	1.00[CEU][hapmap]
rs5965073	1.00[CEU][hapmap]
rs5965083	1.00[CHD][hapmap];1.00[GIH][hapmap];0.93[MEX][hapmap];0.82[TSI][hapmap]
rs5965085	0.93[YRI][hapmap]
rs5965087	0.81[YRI][hapmap]
rs606886	0.86[MEX][hapmap]
rs6624823	1.00[CHD][hapmap]
rs6624844	0.86[MEX][hapmap]
rs670546	0.86[MEX][hapmap];0.82[TSI][hapmap]
rs760867	0.86[MEX][hapmap]
rs7882859	1.00[CHD][hapmap]
rs9633155	0.93[GIH][hapmap];0.93[MEX][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3429625	chrX:64787230-65458721	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
2	nsv995042	chrX:65121634-65953299	Weak transcription Enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Active TSS Strong transcription Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	40 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	chrX:65205000-65208400	Enhancers	Primary T cells from cord blood	blood
2	chrX:65205000-65211000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
3	chrX:65205000-65211000	Enhancers	K562	blood
4	chrX:65205600-65206800	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
5	chrX:65205600-65207800	Enhancers	Primary T killer memory cells from peripheral blood	blood
6	chrX:65205600-65208000	Enhancers	Primary T helper naive cells from peripheral blood	blood
7	chrX:65205600-65208200	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
8	chrX:65205600-65208200	Enhancers	Primary T helper cells PMA-I stimulated	--
9	chrX:65205600-65208400	Enhancers	Primary B cells from peripheral blood	blood
10	chrX:65205800-65206800	Enhancers	Primary T cells fromperipheralblood	blood
11	chrX:65205800-65206800	Enhancers	Primary T killer naive cells fromperipheralblood	blood
12	chrX:65205800-65207000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
13	chrX:65205800-65207000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
14	chrX:65205800-65207000	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
15	chrX:65205800-65207000	Enhancers	Rectal Mucosa Donor 31	rectum
16	chrX:65205800-65208000	Enhancers	Primary T helper cells fromperipheralblood	blood
17	chrX:65205800-65208000	Enhancers	Dnd41	blood
18	chrX:65205800-65208000	Enhancers	GM12878-XiMat	blood
19	chrX:65205800-65208200	Enhancers	Primary T helper naive cells fromperipheralblood	blood
20	chrX:65205800-65208200	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
21	chrX:65206000-65206600	Enhancers	Stomach Mucosa	stomach
22	chrX:65206000-65206600	Enhancers	HMEC	breast
23	chrX:65206000-65207200	Enhancers	Primary hematopoietic stem cells short term culture	blood
24	chrX:65206200-65207400	Flanking Active TSS	Primary B cells from cord blood	blood
25	chrX:65206200-65207800	Weak transcription	HUES6 Cell Line	embryonic stem cell
26	chrX:65206200-65207800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
27	chrX:65206200-65208000	Flanking Active TSS	Primary monocytes fromperipheralblood	blood
28	chrX:65206400-65207000	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
29	chrX:65206400-65207400	Flanking Active TSS	Primary hematopoietic stem cells	blood
30	chrX:65206400-65210600	Weak transcription	Fetal Thymus	thymus

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