Variant report

Variant	rs7167402
Chromosome Location	chr15:49301293-49301294
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 28 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs1054307	0.92[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.97[LWK][hapmap];0.96[MEX][hapmap];0.98[MKK][hapmap];0.98[TSI][hapmap];0.90[YRI][hapmap];0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10775139	0.81[CEU][hapmap]
rs11070682	0.88[CEU][hapmap]
rs11638215	1.00[CEU][hapmap];0.83[GIH][hapmap];0.88[JPT][hapmap];1.00[MEX][hapmap];0.85[MKK][hapmap];0.95[TSI][hapmap];0.90[YRI][hapmap];0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11855740	1.00[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12903559	0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12909616	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs16962017	0.88[JPT][hapmap]
rs2899427	0.88[CEU][hapmap]
rs4284578	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4390538	0.85[CHB][hapmap]
rs4435198	0.82[ASN][1000 genomes]
rs4536401	1.00[CEU][hapmap];0.88[JPT][hapmap];0.86[YRI][hapmap];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4774536	0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4775790	0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4775792	0.89[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4775795	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4775796	0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6493346	1.00[CEU][hapmap];0.85[GIH][hapmap];0.88[JPT][hapmap];1.00[MEX][hapmap];0.85[MKK][hapmap];0.95[TSI][hapmap];0.85[YRI][hapmap];0.81[AFR][1000 genomes];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7164309	0.81[YRI][hapmap]
rs7165264	1.00[CEU][hapmap];0.88[JPT][hapmap];0.90[YRI][hapmap];0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7183756	0.81[ASN][1000 genomes]
rs7359317	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs8029914	1.00[ASW][hapmap];1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];0.94[JPT][hapmap];1.00[LWK][hapmap];0.96[MEX][hapmap];0.96[MKK][hapmap];0.98[TSI][hapmap];0.95[YRI][hapmap];0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8033060	0.94[CHB][hapmap];0.82[ASN][1000 genomes]
rs8037958	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs877007	1.00[CEU][hapmap];0.88[JPT][hapmap];0.86[YRI][hapmap];0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9920913	0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs7167402	SECISBP2L	cis	cerebellum	SCAN
rs7167402	GALK2	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:123 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:49268800-49309200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
2	chr15:49282800-49333400	Weak transcription	A549	lung
3	chr15:49283600-49337600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
4	chr15:49285000-49302800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
5	chr15:49285000-49329000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
6	chr15:49287200-49308000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr15:49287600-49308000	Weak transcription	HepG2	liver
8	chr15:49289200-49336400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
9	chr15:49289400-49303800	Weak transcription	Psoas Muscle	Psoas
10	chr15:49289800-49317000	Weak transcription	Stomach Mucosa	stomach
11	chr15:49291400-49307400	Weak transcription	Gastric	stomach
12	chr15:49291400-49307400	Weak transcription	Pancreas	Pancrea
13	chr15:49291400-49308000	Weak transcription	H9 Cell Line	embryonic stem cell
14	chr15:49292200-49301400	Weak transcription	Aorta	Aorta
15	chr15:49292200-49307800	Weak transcription	NHEK	skin
16	chr15:49292400-49301400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
17	chr15:49292800-49301400	Weak transcription	GM12878-XiMat	blood
18	chr15:49292800-49308000	Weak transcription	Fetal Heart	heart
19	chr15:49292800-49308000	Weak transcription	Small Intestine	intestine
20	chr15:49297000-49309800	Strong transcription	Duodenum Mucosa	Duodenum
21	chr15:49297200-49305000	Strong transcription	HUES64 Cell Line	embryonic stem cell
22	chr15:49297200-49305200	Strong transcription	Fetal Brain Female	brain
23	chr15:49297200-49305400	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
24	chr15:49297200-49306000	Strong transcription	Fetal Intestine Large	intestine
25	chr15:49297200-49310000	Strong transcription	Liver	Liver
26	chr15:49297400-49305400	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
27	chr15:49297400-49310200	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
28	chr15:49297400-49310800	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
29	chr15:49297600-49309400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
30	chr15:49297800-49309800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
31	chr15:49298000-49304600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
32	chr15:49298000-49305200	Strong transcription	HUES48 Cell Line	embryonic stem cell
33	chr15:49298000-49305400	Strong transcription	HUES6 Cell Line	embryonic stem cell
34	chr15:49298000-49305600	Strong transcription	iPS-20b Cell Line	embryonic stem cell
35	chr15:49298000-49308000	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
36	chr15:49298000-49309800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
37	chr15:49298000-49311400	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
38	chr15:49298000-49328400	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
39	chr15:49298000-49328800	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
40	chr15:49298200-49301400	Strong transcription	Colon Smooth Muscle	Colon
41	chr15:49298200-49301600	Strong transcription	iPS-18 Cell Line	embryonic stem cell
42	chr15:49298200-49303200	Strong transcription	Ovary	ovary
43	chr15:49298200-49304800	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
44	chr15:49298200-49304800	Strong transcription	Stomach Smooth Muscle	stomach
45	chr15:49298200-49305200	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
46	chr15:49298200-49305200	Strong transcription	Skeletal Muscle Male	skeletal muscle
47	chr15:49298200-49306800	Strong transcription	Duodenum Smooth Muscle	Duodenum
48	chr15:49298200-49308800	Strong transcription	Fetal Thymus	thymus
49	chr15:49298200-49309600	Strong transcription	Primary T cells from cord blood	blood
50	chr15:49298200-49309600	Strong transcription	Brain Inferior Temporal Lobe	brain

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