Variant report

Variant	rs68155341
Chromosome Location	chr15:52646526-52646527
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:52597021..52599373-chr15:52645186..52647401,2	MCF-7	breast:
2	chr15:52642497..52646908-chr15:52859838..52862165,5	MCF-7	breast:
3	chr15:52646089..52648617-chr15:52650499..52653001,2	K562	blood:

Variant related genes	Relation type
ENSG00000128989	Chromatin interaction

Extended variants
information (count: 160 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:158)

rs_ID	r²[population]
rs10518684	1.00[ASN][1000 genomes]
rs10518689	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10518691	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1058219	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10851514	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10851515	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10851516	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10851517	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11070898	0.81[AMR][1000 genomes]
rs11070899	0.81[AMR][1000 genomes]
rs11070900	0.81[AMR][1000 genomes]
rs11852261	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11852555	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11853078	0.81[AMR][1000 genomes]
rs11853114	0.81[AMR][1000 genomes]
rs11853237	0.80[EUR][1000 genomes]
rs11853337	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11853455	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11853586	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11853802	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11853875	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11854130	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs11854247	0.81[AMR][1000 genomes]
rs11854456	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11854498	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11854886	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11855252	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11855257	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11855295	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11855352	0.81[AMR][1000 genomes]
rs11855438	0.81[AMR][1000 genomes]
rs11855584	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11855640	0.84[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs11855692	0.81[AMR][1000 genomes]
rs11855820	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11855884	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11856242	0.83[AMR][1000 genomes]
rs11856494	0.81[AMR][1000 genomes]
rs11856542	0.81[AMR][1000 genomes]
rs11856752	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11856810	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11856896	0.91[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11856989	0.81[AMR][1000 genomes]
rs11857914	0.81[AMR][1000 genomes]
rs11857993	0.81[AMR][1000 genomes]
rs11858031	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11858321	0.81[AMR][1000 genomes]
rs11858927	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs12050602	0.83[ASN][1000 genomes]
rs12050717	0.88[ASN][1000 genomes]
rs1464965	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs1464966	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs1474435	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1474436	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1474437	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1474438	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1724578	0.96[EUR][1000 genomes]
rs1724579	0.96[EUR][1000 genomes]
rs1724590	0.83[EUR][1000 genomes]
rs17541809	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs17613587	0.98[AFR][1000 genomes];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17613607	0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17613951	0.80[AFR][1000 genomes];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs17651212	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs17651218	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs17651230	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs17651242	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs17651397	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs17651545	0.81[AMR][1000 genomes]
rs17651611	0.81[AMR][1000 genomes]
rs17707338	0.87[AFR][1000 genomes];0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17707651	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs17707705	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs17707729	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs17707984	0.81[AMR][1000 genomes]
rs17707996	0.81[AMR][1000 genomes]
rs1815175	0.81[AMR][1000 genomes]
rs1815176	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1869126	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1869127	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1869128	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2049519	0.81[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs2049520	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs2140962	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2290334	0.90[AFR][1000 genomes];0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2414148	0.87[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2414152	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2414155	0.81[AMR][1000 genomes]
rs28519556	0.81[AMR][1000 genomes]
rs28680872	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2899489	0.81[AMR][1000 genomes]
rs35943650	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs36074938	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs3751619	0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3751620	0.85[EUR][1000 genomes]
rs3794568	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3816449	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4341694	0.98[AFR][1000 genomes];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4528515	0.81[AMR][1000 genomes]
rs4547284	0.81[AMR][1000 genomes]
rs4774623	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs4774624	0.81[AMR][1000 genomes]
rs4774625	0.81[AMR][1000 genomes]
rs4774626	0.81[AMR][1000 genomes]
rs4774627	0.81[AMR][1000 genomes]
rs4776044	0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4776045	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4776051	0.81[AMR][1000 genomes]
rs55663209	0.81[AMR][1000 genomes]
rs55706220	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs55722736	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs55856498	0.81[AMR][1000 genomes]
rs55978431	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56039749	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs56043792	0.81[AMR][1000 genomes]
rs56124629	0.81[AMR][1000 genomes]
rs56128753	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs56136255	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs56148029	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs56227135	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs56271524	0.81[AMR][1000 genomes]
rs56312354	0.94[ASN][1000 genomes]
rs56315558	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs56332522	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs56360952	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs56749732	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs56850880	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs56992654	0.89[AFR][1000 genomes];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs57505385	0.80[EUR][1000 genomes]
rs58043289	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs58388195	0.81[AMR][1000 genomes]
rs58922508	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs59496859	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs59584964	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs60248452	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs60512163	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs60607997	0.81[AMR][1000 genomes]
rs61617647	0.81[AMR][1000 genomes]
rs66674706	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs67249415	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs67283829	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs67287941	0.81[AMR][1000 genomes]
rs67399033	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs67438240	0.83[ASN][1000 genomes]
rs68101123	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs72623980	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs72623982	0.80[EUR][1000 genomes]
rs72623986	0.81[AMR][1000 genomes]
rs72736668	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs72736669	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs72736696	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs72736701	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs72736702	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs940966	0.96[EUR][1000 genomes]
rs940967	0.96[EUR][1000 genomes]
rs940971	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs940972	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs940973	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv1846455	chr15:52501831-52714452	Strong transcription Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
2	nsv471245	chr15:52607262-53187165	Weak transcription Strong transcription Active TSS Enhancers Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	52 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs68155341	ARPP19	cis	Nerve Tibial	GTEx

Chromatin state (count:114 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:52600800-52646600	Strong transcription	Primary neutrophils fromperipheralblood	blood
2	chr15:52607800-52657800	Weak transcription	Small Intestine	intestine
3	chr15:52609800-52677600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr15:52611600-52650200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr15:52611800-52675800	Weak transcription	Gastric	stomach
6	chr15:52613600-52666600	Weak transcription	Right Ventricle	heart
7	chr15:52614800-52653200	Weak transcription	Colonic Mucosa	Colon
8	chr15:52620000-52652200	Weak transcription	Rectal Mucosa Donor 31	rectum
9	chr15:52620600-52659200	Weak transcription	Fetal Lung	lung
10	chr15:52621200-52666600	Weak transcription	Fetal Brain Male	brain
11	chr15:52621800-52662200	Weak transcription	Psoas Muscle	Psoas
12	chr15:52627000-52646600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
13	chr15:52630600-52684800	Weak transcription	H9 Cell Line	embryonic stem cell
14	chr15:52631600-52679200	Weak transcription	Fetal Intestine Small	intestine
15	chr15:52632600-52670400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
16	chr15:52632800-52657400	Weak transcription	H1 Cell Line	embryonic stem cell
17	chr15:52632800-52662200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
18	chr15:52633600-52662200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
19	chr15:52635200-52648200	Strong transcription	Primary B cells from peripheral blood	blood
20	chr15:52638000-52671600	Weak transcription	Pancreatic Islets	Pancreatic Islet
21	chr15:52640200-52646600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
22	chr15:52640200-52647000	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
23	chr15:52640200-52647600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
24	chr15:52640200-52655000	Weak transcription	Liver	Liver
25	chr15:52640400-52646600	Strong transcription	Cortex derived primary cultured neurospheres	brain
26	chr15:52640400-52648400	Strong transcription	Primary T cells fromperipheralblood	blood
27	chr15:52640600-52648200	Strong transcription	Primary T helper cells fromperipheralblood	blood
28	chr15:52640600-52666600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
29	chr15:52641400-52646600	Strong transcription	Primary T helper cells PMA-I stimulated	--
30	chr15:52641400-52646600	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
31	chr15:52641600-52648200	Strong transcription	Duodenum Smooth Muscle	Duodenum
32	chr15:52641800-52666800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
33	chr15:52642600-52647000	Strong transcription	Primary B cells from cord blood	blood
34	chr15:52642600-52648400	Strong transcription	NHEK	skin
35	chr15:52643600-52655600	Weak transcription	HUES6 Cell Line	embryonic stem cell
36	chr15:52643800-52650200	Weak transcription	Sigmoid Colon	Sigmoid Colon
37	chr15:52643800-52654000	Weak transcription	Osteobl	bone
38	chr15:52643800-52655400	Weak transcription	HUES64 Cell Line	embryonic stem cell
39	chr15:52644000-52650200	Weak transcription	Ovary	ovary
40	chr15:52644000-52664200	Weak transcription	NHLF	lung
41	chr15:52644000-52666600	Weak transcription	Fetal Muscle Trunk	muscle
42	chr15:52644200-52661000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
43	chr15:52644200-52680800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
44	chr15:52644600-52646600	Strong transcription	HSMMtube	muscle
45	chr15:52644600-52650000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
46	chr15:52644600-52650000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
47	chr15:52644600-52650000	Weak transcription	NHDF-Ad	bronchial
48	chr15:52644600-52650200	Weak transcription	Pancreas	Pancrea
49	chr15:52644600-52650400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
50	chr15:52644600-52652000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood

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