Variant report

Variant	rs13205911
Chromosome Location	chr6:28124114-28124115
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:28122633..28124564-chr6:28302232..28305019,2	K562	blood:
2	chr6:28121677..28124555-chr6:28208936..28210698,3	K562	blood:
3	chr6:28123814..28127581-chr6:28129241..28131272,3	MCF-7	breast:
4	chr6:28122889..28124668-chr6:28176710..28180566,3	K562	blood:
5	chr6:28122601..28125129-chr6:28187296..28189318,2	K562	blood:

Variant related genes	Relation type
ENSG00000235109	Chromatin interaction
ENSG00000226314	Chromatin interaction

Extended variants
information (count: 71 )
Associated
traits (count: 5 )

rSNPs within LD-proxies of this variant (count:71)

rs_ID	r²[population]
rs13190888	0.81[EUR][1000 genomes]
rs13191786	0.85[EUR][1000 genomes]
rs13195291	1.00[CEU][hapmap];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs13197176	1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs13197574	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13197633	1.00[CEU][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs13198809	0.85[EUR][1000 genomes]
rs13200214	1.00[CEU][hapmap];1.00[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs13201308	1.00[CEU][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13203816	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13204012	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs13205211	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs13207345	1.00[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs13208096	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs13211507	1.00[CEU][hapmap];1.00[TSI][hapmap];0.85[EUR][1000 genomes]
rs13213152	1.00[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs13213986	1.00[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs13214023	1.00[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs13217619	1.00[CEU][hapmap];1.00[AFR][1000 genomes]
rs13217984	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs149943	0.83[CEU][hapmap]
rs149990	0.83[CEU][hapmap]
rs17720293	0.83[CEU][hapmap]
rs2232426	0.82[EUR][1000 genomes]
rs2232429	0.82[EUR][1000 genomes]
rs33932084	0.84[EUR][1000 genomes]
rs34166054	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34218844	1.00[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs34243448	1.00[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs34371502	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34396849	0.85[EUR][1000 genomes]
rs34505829	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34546986	1.00[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs34588114	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34661125	0.85[EUR][1000 genomes]
rs34662244	0.82[EUR][1000 genomes]
rs34691223	0.85[EUR][1000 genomes]
rs34765154	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34832585	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34878803	0.85[EUR][1000 genomes]
rs34950484	0.85[EUR][1000 genomes]
rs35001169	1.00[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs35016036	1.00[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs35017208	0.85[EUR][1000 genomes]
rs35030260	1.00[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs35072899	0.85[EUR][1000 genomes]
rs35098436	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35345226	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35353359	1.00[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs35656932	1.00[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs35744819	0.85[EUR][1000 genomes]
rs35749575	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35781323	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35902873	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35952432	0.90[EUR][1000 genomes]
rs36092177	0.82[EUR][1000 genomes]
rs56075693	1.00[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs56189111	1.00[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs66886492	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs67297533	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs67340775	0.84[EUR][1000 genomes]
rs67981811	0.82[EUR][1000 genomes]
rs67998226	0.85[EUR][1000 genomes]
rs68188794	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs71537572	1.00[AFR][1000 genomes]
rs71559070	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs71559072	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72846780	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72846794	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72854513	1.00[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs7752448	0.90[CEU][hapmap]

mRNA abundance (count:5)

SNP	Gene	Cis/trans	Tissue	Source
rs13205911	BTN3A2	trans	lymphoblastoid	seeQTL
rs13205911	BTN3A2	Cis_chr	lymphoblastoid	RTeQTL
rs13205911	ZFP57	Cis_chr	lymphoblastoid	RTeQTL
rs13205911	AL022393.7	cis	Muscle Skeletal	GTEx
rs13205911	BTN3A2///BTN3A3	Cis_chr	lymphoblastoid	RTeQTL

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:28111400-28129200	Weak transcription	Right Atrium	heart
2	chr6:28111800-28127000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
3	chr6:28112000-28124800	Strong transcription	Primary T cells fromperipheralblood	blood
4	chr6:28112000-28126600	Strong transcription	Primary T helper cells fromperipheralblood	blood
5	chr6:28112400-28124800	Strong transcription	HepG2	liver
6	chr6:28113200-28127200	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr6:28113800-28124600	Strong transcription	Dnd41	blood
8	chr6:28113800-28125600	Strong transcription	Primary T helper cells PMA-I stimulated	--
9	chr6:28115200-28125800	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
10	chr6:28115200-28127200	Strong transcription	Fetal Brain Female	brain
11	chr6:28115400-28124400	Strong transcription	Primary T helper memory cells from peripheral blood 1	blood
12	chr6:28115400-28124600	Strong transcription	Cortex derived primary cultured neurospheres	brain
13	chr6:28115400-28124600	Strong transcription	NHDF-Ad	bronchial
14	chr6:28115400-28124800	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
15	chr6:28115400-28125000	Strong transcription	Muscle Satellite Cultured Cells	--
16	chr6:28115400-28125000	Strong transcription	Brain Germinal Matrix	brain
17	chr6:28115400-28125200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
18	chr6:28115400-28125200	Strong transcription	Fetal Intestine Large	intestine
19	chr6:28115400-28125200	Strong transcription	Fetal Muscle Leg	muscle
20	chr6:28115400-28125400	Strong transcription	iPS-18 Cell Line	embryonic stem cell
21	chr6:28115400-28125400	Strong transcription	Ovary	ovary
22	chr6:28115400-28126600	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
23	chr6:28115400-28127000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
24	chr6:28115400-28127000	Strong transcription	Fetal Muscle Trunk	muscle
25	chr6:28115600-28124200	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
26	chr6:28115600-28125400	Strong transcription	Brain Inferior Temporal Lobe	brain
27	chr6:28115600-28125800	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
28	chr6:28115600-28126200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
29	chr6:28115800-28124800	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
30	chr6:28115800-28124800	Strong transcription	Left Ventricle	heart
31	chr6:28115800-28125200	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
32	chr6:28115800-28125200	Strong transcription	Adipose Nuclei	Adipose
33	chr6:28115800-28125200	Strong transcription	Rectal Mucosa Donor 29	rectum
34	chr6:28115800-28125400	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
35	chr6:28115800-28125400	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
36	chr6:28115800-28125600	Strong transcription	Rectal Mucosa Donor 31	rectum
37	chr6:28115800-28127400	Strong transcription	Skeletal Muscle Female	skeletal muscle
38	chr6:28116000-28124800	Strong transcription	Placenta	Placenta
39	chr6:28116000-28125800	Strong transcription	Duodenum Smooth Muscle	Duodenum
40	chr6:28116000-28126800	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
41	chr6:28116000-28127000	Strong transcription	Brain Hippocampus Middle	brain
42	chr6:28116000-28127200	Strong transcription	Stomach Smooth Muscle	stomach
43	chr6:28116200-28124200	Strong transcription	Right Ventricle	heart
44	chr6:28116200-28124800	Strong transcription	Primary T helper memory cells from peripheral blood 2	blood
45	chr6:28116200-28124800	Strong transcription	Brain Anterior Caudate	brain
46	chr6:28116200-28126400	Strong transcription	Placenta Amnion	Placenta Amnion
47	chr6:28116200-28127000	Strong transcription	Fetal Lung	lung
48	chr6:28116400-28125400	Strong transcription	Colon Smooth Muscle	Colon
49	chr6:28118400-28124400	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
50	chr6:28118800-28125000	Strong transcription	Brain Substantia Nigra	brain

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