Variant report

Variant	rs5987087
Chromosome Location	chrX:154346551-154346552
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 29 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs1470586	0.88[MEX][hapmap]
rs17051889	0.88[MEX][hapmap]
rs2051161	0.81[CHD][hapmap];0.88[GIH][hapmap]
rs2084408	0.92[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.87[LWK][hapmap];1.00[MEX][hapmap];0.88[MKK][hapmap];1.00[TSI][hapmap]
rs2084409	1.00[CHB][hapmap];0.87[CHD][hapmap];1.00[JPT][hapmap]
rs4898358	0.81[CEU][hapmap];1.00[CHB][hapmap];0.87[CHD][hapmap];1.00[JPT][hapmap];0.88[MEX][hapmap]
rs4898406	0.88[MEX][hapmap]
rs4898407	0.81[CHB][hapmap]
rs4898408	0.91[CHB][hapmap];1.00[JPT][hapmap]
rs4898413	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs5945279	0.88[MEX][hapmap]
rs5945282	0.88[GIH][hapmap]
rs5945287	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs5945289	0.81[CEU][hapmap];1.00[CHB][hapmap];0.87[CHD][hapmap];1.00[JPT][hapmap];0.88[MEX][hapmap]
rs5945296	0.85[GIH][hapmap]
rs5945300	0.81[CEU][hapmap];1.00[CHB][hapmap];0.87[CHD][hapmap];1.00[JPT][hapmap];0.88[MEX][hapmap]
rs5945301	0.81[CEU][hapmap];1.00[CHB][hapmap];0.87[CHD][hapmap];1.00[JPT][hapmap];0.82[MEX][hapmap]
rs5986908	1.00[CHB][hapmap];0.87[CHD][hapmap];1.00[JPT][hapmap]
rs5987090	0.82[CHB][hapmap]
rs5987092	1.00[CHB][hapmap];0.87[CHD][hapmap];1.00[JPT][hapmap]
rs5987094	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6642218	0.85[ASW][hapmap];1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[CHD][hapmap];0.94[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.96[TSI][hapmap]
rs6649617	1.00[CHB][hapmap];0.87[CHD][hapmap];1.00[JPT][hapmap]
rs7051718	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7472099	1.00[CHB][hapmap];1.00[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap]
rs7879736	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap]
rs895744	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[LWK][hapmap];0.94[MEX][hapmap];0.98[MKK][hapmap];0.95[TSI][hapmap];1.00[YRI][hapmap]
rs895745	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[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap]
rs965691	1.00[CHB][hapmap];1.00[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs5987087	PLXNA3	cis	multi-tissue	Pritchard

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chrX:154300600-154350000	Weak transcription	Right Ventricle	heart
2	chrX:154300600-154351200	Weak transcription	Brain Cingulate Gyrus	brain
3	chrX:154300600-154355000	Weak transcription	Aorta	Aorta
4	chrX:154300800-154348000	Weak transcription	HSMM	muscle
5	chrX:154300800-154348200	Weak transcription	Osteobl	bone
6	chrX:154300800-154350800	Weak transcription	NHDF-Ad	bronchial
7	chrX:154300800-154351600	Weak transcription	Colonic Mucosa	Colon
8	chrX:154300800-154353400	Weak transcription	HSMMtube	muscle
9	chrX:154301200-154347800	Weak transcription	Muscle Satellite Cultured Cells	--
10	chrX:154301200-154354200	Weak transcription	Esophagus	oesophagus
11	chrX:154306400-154346800	Weak transcription	Gastric	stomach
12	chrX:154306400-154349800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
13	chrX:154306800-154350400	Weak transcription	H1 Cell Line	embryonic stem cell
14	chrX:154307000-154349600	Weak transcription	Ovary	ovary
15	chrX:154307000-154349600	Weak transcription	Skeletal Muscle Male	skeletal muscle
16	chrX:154307400-154351000	Weak transcription	Hela-S3	cervix
17	chrX:154307600-154350400	Weak transcription	Colon Smooth Muscle	Colon
18	chrX:154307800-154350000	Weak transcription	NH-A	brain
19	chrX:154307800-154350400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
20	chrX:154307800-154352800	Weak transcription	Brain Inferior Temporal Lobe	brain
21	chrX:154307800-154357400	Weak transcription	Brain Hippocampus Middle	brain
22	chrX:154308000-154349000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
23	chrX:154308000-154353600	Weak transcription	Fetal Intestine Large	intestine
24	chrX:154308200-154353800	Weak transcription	Skeletal Muscle Female	skeletal muscle
25	chrX:154310200-154348600	Weak transcription	Lung	lung
26	chrX:154313800-154347800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
27	chrX:154314600-154347800	Weak transcription	Rectal Mucosa Donor 29	rectum
28	chrX:154314600-154355800	Weak transcription	Brain Angular Gyrus	brain
29	chrX:154314800-154346600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
30	chrX:154314800-154346600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
31	chrX:154314800-154350000	Weak transcription	Spleen	Spleen
32	chrX:154314800-154353400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
33	chrX:154314800-154353600	Weak transcription	Thymus	Thymus
34	chrX:154315200-154346600	Weak transcription	Fetal Intestine Small	intestine
35	chrX:154315400-154349800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
36	chrX:154318200-154349400	Weak transcription	Left Ventricle	heart
37	chrX:154318600-154348200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
38	chrX:154319400-154355400	Weak transcription	Cortex derived primary cultured neurospheres	brain
39	chrX:154319600-154355200	Weak transcription	Primary B cells from cord blood	blood
40	chrX:154320000-154354400	Weak transcription	Placenta	Placenta
41	chrX:154321200-154349600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
42	chrX:154323200-154353800	Weak transcription	Primary T helper cells PMA-I stimulated	--
43	chrX:154323400-154353800	Weak transcription	K562	blood
44	chrX:154324600-154348200	Weak transcription	Fetal Thymus	thymus
45	chrX:154324800-154348400	Weak transcription	HUVEC	blood vessel
46	chrX:154326000-154349000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
47	chrX:154329000-154350800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
48	chrX:154331000-154346800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
49	chrX:154339000-154347400	Weak transcription	HepG2	liver
50	chrX:154341600-154347800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--

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