Variant report

Variant	rs5960235
Chromosome Location	chrX:57009706-57009707
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chrX:57001897..57004424-chrX:57007337..57011181,3	MCF-7	breast:

Extended variants
information (count: 16 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs10521485	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs150099	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap]
rs204166	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap]
rs2071722	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.82[TSI][hapmap]
rs378487	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.90[TSI][hapmap]
rs5914036	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.97[TSI][hapmap]
rs5914037	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.85[TSI][hapmap]
rs5914052	1.00[ASW][hapmap];1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap]
rs5914874	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap]
rs5914897	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.89[MEX][hapmap];0.90[TSI][hapmap]
rs5960817	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.89[MEX][hapmap]
rs6612746	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap]
rs6612757	0.92[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap]
rs697664	1.00[ASW][hapmap];1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.97[TSI][hapmap]
rs707346	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.85[TSI][hapmap]
rs912956	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.90[TSI][hapmap]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs5960235	SPIN-2	cis	multi-tissue	Pritchard

Chromatin state (count:98 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chrX:56980400-57020800	Weak transcription	Brain Angular Gyrus	brain
2	chrX:56980600-57010200	Weak transcription	Rectal Smooth Muscle	rectum
3	chrX:56986800-57019400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chrX:56987400-57021200	Weak transcription	Psoas Muscle	Psoas
5	chrX:56988000-57021000	Weak transcription	Rectal Mucosa Donor 31	rectum
6	chrX:56988800-57020600	Weak transcription	Brain Cingulate Gyrus	brain
7	chrX:56990600-57011800	Weak transcription	Primary T cells fromperipheralblood	blood
8	chrX:56991200-57010400	Weak transcription	HSMM	muscle
9	chrX:56993000-57021000	Weak transcription	Fetal Brain Male	brain
10	chrX:56993200-57020600	Weak transcription	HSMMtube	muscle
11	chrX:56994400-57021000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
12	chrX:56994800-57020600	Weak transcription	Brain Substantia Nigra	brain
13	chrX:56995400-57021000	Weak transcription	Fetal Stomach	stomach
14	chrX:56995400-57021200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
15	chrX:56995600-57020800	Weak transcription	Muscle Satellite Cultured Cells	--
16	chrX:56995800-57021000	Weak transcription	Hela-S3	cervix
17	chrX:56996000-57021000	Weak transcription	NHDF-Ad	bronchial
18	chrX:56998600-57019400	Weak transcription	Gastric	stomach
19	chrX:56998800-57020600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
20	chrX:56999200-57011600	Weak transcription	Primary T helper cells PMA-I stimulated	--
21	chrX:56999400-57020600	Weak transcription	Primary monocytes fromperipheralblood	blood
22	chrX:56999400-57021000	Weak transcription	Fetal Intestine Small	intestine
23	chrX:56999800-57020600	Weak transcription	Right Ventricle	heart
24	chrX:57000000-57017600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
25	chrX:57000800-57013400	Strong transcription	HUES6 Cell Line	embryonic stem cell
26	chrX:57001000-57009800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
27	chrX:57001000-57021000	Weak transcription	K562	blood
28	chrX:57001200-57009800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
29	chrX:57001400-57020600	Strong transcription	iPS-20b Cell Line	embryonic stem cell
30	chrX:57001600-57021400	ZNF genes & repeats	HUES48 Cell Line	embryonic stem cell
31	chrX:57001800-57020600	Strong transcription	HUES64 Cell Line	embryonic stem cell
32	chrX:57002200-57013000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
33	chrX:57002200-57013400	Strong transcription	Liver	Liver
34	chrX:57002400-57019400	Weak transcription	Colon Smooth Muscle	Colon
35	chrX:57002600-57019400	Weak transcription	Cortex derived primary cultured neurospheres	brain
36	chrX:57002800-57012200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
37	chrX:57002800-57021200	Weak transcription	Lung	lung
38	chrX:57002800-57021400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
39	chrX:57003000-57020800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
40	chrX:57003200-57021000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
41	chrX:57003800-57021200	Weak transcription	Esophagus	oesophagus
42	chrX:57004000-57019800	Weak transcription	Brain Hippocampus Middle	brain
43	chrX:57004600-57011600	Weak transcription	Primary T cells from cord blood	blood
44	chrX:57004600-57011600	Weak transcription	Primary T helper cells fromperipheralblood	blood
45	chrX:57004800-57010400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
46	chrX:57004800-57011800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
47	chrX:57004800-57011800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
48	chrX:57004800-57012800	Weak transcription	GM12878-XiMat	blood
49	chrX:57004800-57018800	Weak transcription	Stomach Mucosa	stomach
50	chrX:57005000-57019000	Weak transcription	Pancreas	Pancrea

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