Variant report

Variant	rs1174546
Chromosome Location	chr15:82437968-82437969
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:82432437..82434618-chr15:82436899..82439260,2	MCF-7	breast:
2	chr15:82436170..82438701-chr15:82440898..82443839,3	MCF-7	breast:
3	chr15:82435106..82437999-chr15:82440887..82442585,2	MCF-7	breast:

Extended variants
information (count: 42 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs1045508	0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11073035	0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1174543	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11855089	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11857208	0.80[AMR][1000 genomes]
rs12443224	0.86[ASN][1000 genomes]
rs13380317	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs13380319	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1392976	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1501371	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1501372	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1846911	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2047678	0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2088858	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2455717	0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs28540744	0.81[ASN][1000 genomes]
rs2867577	0.81[EUR][1000 genomes]
rs2867579	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4270132	0.85[EUR][1000 genomes]
rs4344697	0.85[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs4778982	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6495642	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6495643	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7164362	0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7166570	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7169961	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7173339	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7173852	0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7176075	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7180584	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7181655	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs8033050	0.81[ASN][1000 genomes]
rs8037224	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs8041868	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs8041924	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs8042464	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs8043108	0.81[ASN][1000 genomes]
rs867370	0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs867371	0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs881308	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9944197	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:1 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv833067	chr15:82234980-82450485	Weak transcription Enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs1174546	GOLGA6L10	cis	Esophagus Mucosa	GTEx
rs1174546	RP13-608F4.1	cis	Esophagus Mucosa	GTEx

Chromatin state (count:121 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:82399000-82452200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr15:82408000-82443600	Weak transcription	Aorta	Aorta
3	chr15:82416200-82443400	Weak transcription	Primary neutrophils fromperipheralblood	blood
4	chr15:82416200-82452400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
5	chr15:82416400-82454000	Weak transcription	Colonic Mucosa	Colon
6	chr15:82416600-82443800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
7	chr15:82419200-82470600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
8	chr15:82420000-82457000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
9	chr15:82420400-82458400	Weak transcription	HepG2	liver
10	chr15:82421200-82443800	Weak transcription	Stomach Smooth Muscle	stomach
11	chr15:82421400-82439000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
12	chr15:82423000-82443600	Weak transcription	Right Ventricle	heart
13	chr15:82423000-82443800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
14	chr15:82423200-82443800	Weak transcription	Psoas Muscle	Psoas
15	chr15:82423200-82454800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
16	chr15:82425000-82443400	Weak transcription	Fetal Intestine Small	intestine
17	chr15:82425600-82438600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
18	chr15:82425600-82439000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
19	chr15:82425800-82443200	Weak transcription	Fetal Brain Female	brain
20	chr15:82426000-82457000	Weak transcription	Pancreatic Islets	Pancreatic Islet
21	chr15:82426800-82443400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
22	chr15:82426800-82443600	Weak transcription	Gastric	stomach
23	chr15:82426800-82443600	Weak transcription	Spleen	Spleen
24	chr15:82427000-82443400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
25	chr15:82427200-82443600	Weak transcription	Cortex derived primary cultured neurospheres	brain
26	chr15:82427600-82443000	Weak transcription	Brain Germinal Matrix	brain
27	chr15:82427600-82456600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
28	chr15:82428400-82438800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
29	chr15:82428400-82443600	Weak transcription	Pancreas	Pancrea
30	chr15:82428800-82439200	Weak transcription	Fetal Muscle Leg	muscle
31	chr15:82430400-82439000	Weak transcription	Placenta	Placenta
32	chr15:82430400-82452400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
33	chr15:82430400-82455200	Weak transcription	Rectal Smooth Muscle	rectum
34	chr15:82431000-82443400	Weak transcription	Duodenum Smooth Muscle	Duodenum
35	chr15:82431200-82438600	Weak transcription	NHLF	lung
36	chr15:82431200-82438800	Weak transcription	Skeletal Muscle Female	skeletal muscle
37	chr15:82431200-82438800	Weak transcription	Hela-S3	cervix
38	chr15:82431200-82440800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
39	chr15:82431200-82441800	Weak transcription	Rectal Mucosa Donor 31	rectum
40	chr15:82431200-82442400	Weak transcription	Primary B cells from peripheral blood	blood
41	chr15:82431200-82443000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
42	chr15:82431200-82443200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
43	chr15:82431200-82443400	Weak transcription	HUES48 Cell Line	embryonic stem cell
44	chr15:82431200-82443400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
45	chr15:82431200-82443600	Weak transcription	HUES64 Cell Line	embryonic stem cell
46	chr15:82431200-82443600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
47	chr15:82431200-82443600	Weak transcription	Thymus	Thymus
48	chr15:82431200-82443800	Weak transcription	Fetal Muscle Trunk	muscle
49	chr15:82431200-82448200	Weak transcription	Primary T helper cells PMA-I stimulated	--
50	chr15:82431200-82450000	Weak transcription	GM12878-XiMat	blood

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