Variant report

Variant	rs5942879
Chromosome Location	chrX:109261326-109261327
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chrX:109246977..109249164-chrX:109259787..109261838,2	MCF-7	breast:
2	chrX:109255314..109258910-chrX:109260338..109262002,3	K562	blood:
3	chrX:109245245..109248209-chrX:109260347..109263186,2	K562	blood:

Variant related genes	Relation type
ENSG00000157600	Chromatin interaction

Extended variants
information (count: 9 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs16985943	1.00[MEX][hapmap]
rs16985945	1.00[MEX][hapmap]
rs6655080	1.00[MEX][hapmap]
rs6655081	1.00[MEX][hapmap]
rs6655125	1.00[MEX][hapmap]
rs6655126	1.00[MEX][hapmap]
rs7885429	1.00[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	nsv531154	chrX:108934095-109332109	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	130 gene(s)	inside rSNPs	diseases
2	esv3369563	chrX:109079631-109573656	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	142 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:80 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chrX:109246800-109294000	Weak transcription	Primary T cells from cord blood	blood
2	chrX:109247400-109282200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
3	chrX:109247400-109318200	Weak transcription	Thymus	Thymus
4	chrX:109247600-109266000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
5	chrX:109247800-109264400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
6	chrX:109247800-109264600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chrX:109248000-109269400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
8	chrX:109248200-109263800	Weak transcription	HUVEC	blood vessel
9	chrX:109248200-109265800	Weak transcription	Primary B cells from cord blood	blood
10	chrX:109248600-109310200	Weak transcription	Primary T helper cells fromperipheralblood	blood
11	chrX:109248800-109264600	Weak transcription	Aorta	Aorta
12	chrX:109248800-109267200	Weak transcription	Rectal Mucosa Donor 29	rectum
13	chrX:109248800-109271800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
14	chrX:109249400-109273400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
15	chrX:109250600-109268600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
16	chrX:109250800-109272800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
17	chrX:109251000-109286200	Weak transcription	Primary hematopoietic stem cells	blood
18	chrX:109251200-109264600	Weak transcription	Duodenum Mucosa	Duodenum
19	chrX:109251600-109263600	Weak transcription	Small Intestine	intestine
20	chrX:109252000-109262400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
21	chrX:109254400-109265800	Weak transcription	GM12878-XiMat	blood
22	chrX:109254800-109265600	Weak transcription	Primary B cells from peripheral blood	blood
23	chrX:109255800-109265400	Weak transcription	Fetal Thymus	thymus
24	chrX:109256000-109266000	Weak transcription	Colonic Mucosa	Colon
25	chrX:109256200-109263600	Weak transcription	Sigmoid Colon	Sigmoid Colon
26	chrX:109256200-109264800	Weak transcription	Esophagus	oesophagus
27	chrX:109256200-109266800	Weak transcription	Primary T cells fromperipheralblood	blood
28	chrX:109256400-109264400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
29	chrX:109256400-109264400	Weak transcription	Gastric	stomach
30	chrX:109256400-109266200	Weak transcription	Psoas Muscle	Psoas
31	chrX:109256400-109266600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
32	chrX:109257800-109271800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
33	chrX:109258000-109266200	Enhancers	Fetal Heart	heart
34	chrX:109258600-109268600	Weak transcription	Dnd41	blood
35	chrX:109258800-109262400	Weak transcription	Primary neutrophils fromperipheralblood	blood
36	chrX:109259000-109262200	Weak transcription	Monocytes-CD14+_RO01746	blood
37	chrX:109259000-109269400	Weak transcription	Right Ventricle	heart
38	chrX:109259200-109262800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
39	chrX:109259200-109263200	Weak transcription	Stomach Mucosa	stomach
40	chrX:109259200-109263600	Weak transcription	HUES48 Cell Line	embryonic stem cell
41	chrX:109259200-109264400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
42	chrX:109259200-109264400	Weak transcription	Duodenum Smooth Muscle	Duodenum
43	chrX:109259200-109264600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
44	chrX:109259200-109266800	Weak transcription	HMEC	breast
45	chrX:109259200-109268600	Weak transcription	HUES64 Cell Line	embryonic stem cell
46	chrX:109259200-109269000	Weak transcription	H9 Cell Line	embryonic stem cell
47	chrX:109259400-109262600	Weak transcription	HSMMtube	muscle
48	chrX:109259400-109264600	Weak transcription	Brain Anterior Caudate	brain
49	chrX:109259400-109269400	Weak transcription	H1 Cell Line	embryonic stem cell
50	chrX:109259400-109270600	Weak transcription	Right Atrium	heart

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