Variant report

Variant	rs1054307
Chromosome Location	chr15:49281624-49281625
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:49276167..49278737-chr15:49279801..49282589,3	K562	blood:

Extended variants
information (count: 26 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs11070682	0.85[CEU][hapmap]
rs11638215	0.96[CEU][hapmap];0.83[GIH][hapmap];0.88[JPT][hapmap];0.96[MEX][hapmap];0.84[MKK][hapmap];0.93[TSI][hapmap];0.81[YRI][hapmap];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11855740	0.96[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12903559	0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12909616	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs16962017	0.88[JPT][hapmap]
rs2899427	0.85[CEU][hapmap]
rs4284578	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4390538	0.85[CHB][hapmap]
rs4435198	0.82[ASN][1000 genomes]
rs4536401	0.96[CEU][hapmap];0.88[JPT][hapmap];0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4774536	0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4775790	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs4775792	0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4775795	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4775796	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6493346	0.96[CEU][hapmap];0.85[GIH][hapmap];0.88[JPT][hapmap];0.96[MEX][hapmap];0.84[MKK][hapmap];0.93[TSI][hapmap];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7165264	0.96[CEU][hapmap];0.88[JPT][hapmap];0.81[YRI][hapmap];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7167402	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]
rs7183756	0.81[ASN][1000 genomes]
rs7359317	0.86[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs8029914	0.92[ASW][hapmap];0.96[CEU][hapmap];0.94[CHB][hapmap];0.94[CHD][hapmap];0.98[GIH][hapmap];0.94[JPT][hapmap];0.97[LWK][hapmap];0.91[MEX][hapmap];0.98[MKK][hapmap];0.95[TSI][hapmap];0.85[YRI][hapmap];0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8033060	0.94[CHB][hapmap];0.82[ASN][1000 genomes]
rs8037958	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs877007	0.96[CEU][hapmap];0.88[JPT][hapmap];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9920913	0.85[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs1054307	SECISBP2L	cis	cerebellum	SCAN
rs1054307	GALK2	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:117 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:49268600-49282000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
2	chr15:49268600-49282600	Weak transcription	Right Ventricle	heart
3	chr15:49268800-49283200	Weak transcription	Fetal Brain Male	brain
4	chr15:49268800-49283400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
5	chr15:49268800-49283600	Weak transcription	Colonic Mucosa	Colon
6	chr15:49268800-49284400	Weak transcription	Esophagus	oesophagus
7	chr15:49268800-49309200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
8	chr15:49269000-49282800	Weak transcription	Fetal Brain Female	brain
9	chr15:49269000-49284400	Weak transcription	Rectal Smooth Muscle	rectum
10	chr15:49269000-49284400	Weak transcription	Spleen	Spleen
11	chr15:49269200-49282600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
12	chr15:49269200-49283600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
13	chr15:49271000-49282800	Weak transcription	Gastric	stomach
14	chr15:49273000-49284400	Weak transcription	Thymus	Thymus
15	chr15:49273400-49283400	Weak transcription	Fetal Kidney	kidney
16	chr15:49274200-49282400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
17	chr15:49274200-49284800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr15:49274800-49282400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
19	chr15:49274800-49283400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
20	chr15:49274800-49283400	Weak transcription	Brain Substantia Nigra	brain
21	chr15:49274800-49283600	Weak transcription	K562	blood
22	chr15:49274800-49284200	Weak transcription	HMEC	breast
23	chr15:49275000-49284400	Weak transcription	HepG2	liver
24	chr15:49275600-49283400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
25	chr15:49276400-49284400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
26	chr15:49276400-49284400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
27	chr15:49276800-49282600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
28	chr15:49276800-49283400	Weak transcription	NHDF-Ad	bronchial
29	chr15:49277200-49282400	Weak transcription	Fetal Intestine Large	intestine
30	chr15:49277200-49282800	Weak transcription	HSMMtube	muscle
31	chr15:49277200-49283400	Weak transcription	Brain Cingulate Gyrus	brain
32	chr15:49277200-49284200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
33	chr15:49277400-49282400	Weak transcription	Brain Hippocampus Middle	brain
34	chr15:49277400-49282600	Weak transcription	Primary T cells fromperipheralblood	blood
35	chr15:49277400-49282800	Weak transcription	Brain Germinal Matrix	brain
36	chr15:49277400-49283400	Weak transcription	Fetal Heart	heart
37	chr15:49277400-49283400	Weak transcription	Fetal Muscle Trunk	muscle
38	chr15:49277400-49283400	Weak transcription	Rectal Mucosa Donor 29	rectum
39	chr15:49277400-49283400	Weak transcription	Skeletal Muscle Female	skeletal muscle
40	chr15:49277400-49283600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
41	chr15:49277400-49284400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
42	chr15:49277400-49284400	Weak transcription	Aorta	Aorta
43	chr15:49277400-49284400	Weak transcription	Fetal Intestine Small	intestine
44	chr15:49277400-49299400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
45	chr15:49277600-49282200	Weak transcription	Primary T helper cells fromperipheralblood	blood
46	chr15:49277600-49282800	Weak transcription	Fetal Muscle Leg	muscle
47	chr15:49277600-49282800	Weak transcription	Left Ventricle	heart
48	chr15:49277600-49284000	Weak transcription	Colon Smooth Muscle	Colon
49	chr15:49277600-49284400	Weak transcription	Cortex derived primary cultured neurospheres	brain
50	chr15:49277800-49282600	Weak transcription	iPS-20b Cell Line	embryonic stem cell

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