Variant report

Variant	rs2929532
Chromosome Location	chr15:72345110-72345111
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 113 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:107)

rs_ID	r²[population]
rs1000281	0.81[EUR][1000 genomes]
rs10851847	0.81[AMR][1000 genomes]
rs10851850	0.85[EUR][1000 genomes]
rs11072349	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11072350	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11630170	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs11630611	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11631650	0.94[AMR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11633167	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11634608	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11637611	0.81[EUR][1000 genomes]
rs11639282	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12050794	0.85[EUR][1000 genomes]
rs12148078	0.83[AFR][1000 genomes];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12439494	0.82[EUR][1000 genomes]
rs12912771	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs13858	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1481860	0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1481861	0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1481862	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1552134	0.86[ASN][1000 genomes]
rs16956369	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2034879	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2128112	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2278987	0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2306489	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2306576	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2415120	0.85[EUR][1000 genomes]
rs2415121	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2415126	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2415128	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2415134	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs28650442	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs28717020	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2899775	0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2899776	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2929508	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2929509	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2929510	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2929511	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2929513	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2929517	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2929525	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2929526	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2929527	0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2929528	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2930069	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2957361	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2957365	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2957368	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2957373	0.82[AFR][1000 genomes];0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2957375	0.81[ASN][1000 genomes]
rs2957724	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2957725	0.80[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2957728	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2957734	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2957735	0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2957736	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2957737	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2957740	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2957742	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2957743	0.90[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs2957745	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2957746	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2957750	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35603965	0.80[EUR][1000 genomes]
rs3759820	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3759900	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs3784313	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4454922	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4511483	0.80[EUR][1000 genomes]
rs4526973	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4777466	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs4777485	0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs55679065	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs59975112	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs62023343	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6494973	0.87[EUR][1000 genomes]
rs6494975	0.80[AMR][1000 genomes];0.81[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs6494990	0.81[AFR][1000 genomes];0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs6494992	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7162299	0.81[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7164780	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7170456	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7172158	0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7173626	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7175197	0.89[AMR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7175373	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7175792	0.81[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7177242	0.80[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7183055	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7183748	0.80[ASN][1000 genomes]
rs7496582	0.86[EUR][1000 genomes]
rs7497104	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs8023788	0.89[AMR][1000 genomes];0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs8025939	0.89[AMR][1000 genomes];0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs8027164	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs8028115	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8030815	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs8032222	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs8036307	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs8037381	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs8040216	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs8040828	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs8182011	0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9302260	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs982752	0.82[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3331306	chr15:72049818-72427559	Strong transcription ZNF genes & repeats Active TSS Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
2	esv3433206	chr15:72049838-72427529	Enhancers Strong transcription Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
3	nsv1042740	chr15:72128799-72482239	Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
4	nsv542426	chr15:72128799-72482239	Flanking Active TSS Strong transcription Weak transcription Enhancers Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
5	nsv431395	chr15:72266174-72701777	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	144 gene(s)	inside rSNPs	diseases
6	nsv833051	chr15:72315471-72508429	Weak transcription Strong transcription Bivalent Enhancer ZNF genes & repeats Enhancers Transcr. at gene 5' and 3' Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs2929532	MYO9A	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:64 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:72282800-72347000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
2	chr15:72282800-72349800	Weak transcription	Brain Hippocampus Middle	brain
3	chr15:72300000-72351000	Weak transcription	Rectal Mucosa Donor 31	rectum
4	chr15:72301000-72361200	Weak transcription	Rectal Mucosa Donor 29	rectum
5	chr15:72302200-72349400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
6	chr15:72328400-72349800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
7	chr15:72330000-72349800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
8	chr15:72330000-72349800	Weak transcription	Duodenum Mucosa	Duodenum
9	chr15:72333200-72353800	Weak transcription	Primary T cells fromperipheralblood	blood
10	chr15:72334000-72355000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
11	chr15:72334400-72350000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
12	chr15:72337000-72349800	Weak transcription	Colon Smooth Muscle	Colon
13	chr15:72338800-72349800	Weak transcription	Primary T helper cells PMA-I stimulated	--
14	chr15:72338800-72349800	Weak transcription	Adipose Nuclei	Adipose
15	chr15:72338800-72349800	Weak transcription	Liver	Liver
16	chr15:72338800-72349800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
17	chr15:72338800-72349800	Weak transcription	Small Intestine	intestine
18	chr15:72338800-72349800	Weak transcription	A549	lung
19	chr15:72338800-72349800	Weak transcription	HSMM	muscle
20	chr15:72338800-72350000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
21	chr15:72338800-72350200	Weak transcription	Primary T cells from cord blood	blood
22	chr15:72338800-72352800	Weak transcription	Left Ventricle	heart
23	chr15:72338800-72353000	Weak transcription	Placenta	Placenta
24	chr15:72339000-72346400	Weak transcription	Primary B cells from peripheral blood	blood
25	chr15:72339000-72352800	Weak transcription	Ovary	ovary
26	chr15:72339000-72353000	Weak transcription	Stomach Smooth Muscle	stomach
27	chr15:72339000-72353600	Weak transcription	Primary T helper cells fromperipheralblood	blood
28	chr15:72339000-72363400	Weak transcription	Primary B cells from cord blood	blood
29	chr15:72339800-72350000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
30	chr15:72339800-72350000	Weak transcription	NH-A	brain
31	chr15:72340000-72349800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
32	chr15:72342000-72349800	Weak transcription	Duodenum Smooth Muscle	Duodenum
33	chr15:72342000-72349800	Weak transcription	Fetal Kidney	kidney
34	chr15:72342000-72352800	Weak transcription	Right Atrium	heart
35	chr15:72342200-72349800	Weak transcription	Brain Substantia Nigra	brain
36	chr15:72342200-72350200	Weak transcription	Skeletal Muscle Female	skeletal muscle
37	chr15:72342400-72350000	Weak transcription	Psoas Muscle	Psoas
38	chr15:72342400-72350200	Weak transcription	Fetal Lung	lung
39	chr15:72342600-72349800	Weak transcription	Brain Anterior Caudate	brain
40	chr15:72342800-72352800	Weak transcription	Thymus	Thymus
41	chr15:72343200-72350000	Weak transcription	NHDF-Ad	bronchial
42	chr15:72343400-72345200	ZNF genes & repeats	iPS DF 19.11 Cell Line	embryonic stem cell
43	chr15:72343400-72345200	Enhancers	Esophagus	oesophagus
44	chr15:72343400-72349800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
45	chr15:72343600-72345200	ZNF genes & repeats	Fetal Intestine Small	intestine
46	chr15:72343600-72345200	ZNF genes & repeats	Fetal Muscle Leg	muscle
47	chr15:72343600-72345200	ZNF genes & repeats	Fetal Stomach	stomach
48	chr15:72343600-72345200	Enhancers	Right Ventricle	heart
49	chr15:72343600-72345400	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
50	chr15:72343600-72349800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung

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