Variant report

Variant	rs11552143
Chromosome Location	chr11:34130342-34130343
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:34125543..34130810-chr11:34377372..34382966,13	MCF-7	breast:
2	chr11:34106069..34110524-chr11:34130126..34133963,4	K562	blood:

Variant related genes	Relation type
ENSG00000166016	Chromatin interaction

Extended variants
information (count: 105 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:105)

rs_ID	r²[population]
rs10047428	0.87[EUR][1000 genomes]
rs10047487	0.87[EUR][1000 genomes]
rs10501132	0.80[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs10501133	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs16925114	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs16925115	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs16925121	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs16925126	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs16925134	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs16925147	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs16925153	0.80[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs16925155	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs16925160	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16925163	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16925167	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16925170	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16925173	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16925175	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16925177	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16925181	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16925182	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16925184	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16925219	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs16926099	0.86[EUR][1000 genomes]
rs17367679	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs17699090	0.80[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs17699505	0.80[AFR][1000 genomes];0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs17699517	0.97[AFR][1000 genomes];0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs17699883	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17700132	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17700360	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17700714	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17700877	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs17701015	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs17771981	0.86[EUR][1000 genomes]
rs17777885	0.80[AFR][1000 genomes];0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs17777985	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs17778417	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17778759	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1883958	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2004272	0.86[EUR][1000 genomes]
rs2421456	0.86[EUR][1000 genomes]
rs2421457	0.86[EUR][1000 genomes]
rs2467392	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2467393	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2473929	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2473932	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2957481	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2957509	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2957514	0.95[EUR][1000 genomes]
rs2982587	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2982617	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2982619	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs36117528	0.84[EUR][1000 genomes]
rs4074368	0.86[EUR][1000 genomes]
rs4237663	0.87[EUR][1000 genomes]
rs4587708	0.87[EUR][1000 genomes]
rs4755357	0.84[EUR][1000 genomes]
rs4755359	0.87[EUR][1000 genomes]
rs4756101	0.82[EUR][1000 genomes]
rs56693007	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56696374	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs56973150	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs57330513	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs57492451	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57636521	0.81[EUR][1000 genomes]
rs58755000	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59158919	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59249605	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs59359577	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs59518134	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59650719	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs59972955	0.80[AFR][1000 genomes];0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs59978955	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs60015864	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60494596	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60549862	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs60700110	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs61171154	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6484694	0.84[EUR][1000 genomes]
rs7104352	0.81[EUR][1000 genomes]
rs7127581	0.97[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs73497030	0.84[EUR][1000 genomes]
rs73497035	0.94[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs73497050	0.86[EUR][1000 genomes]
rs73497064	0.97[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs73500434	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs73501009	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs73501017	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs73501018	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs73501023	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs73501037	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73501038	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs73501048	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs73501059	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73501064	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs73501065	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs73501069	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73501097	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7483997	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7925527	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7933297	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7944654	0.87[EUR][1000 genomes]
rs8191	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs958332	0.86[EUR][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11552143	NAT10	cis	Stomach	GTEx

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:34127800-34131200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr11:34128000-34131800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr11:34128000-34133200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr11:34128000-34168000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
5	chr11:34128200-34131000	Weak transcription	Spleen	Spleen
6	chr11:34128200-34131200	Weak transcription	Gastric	stomach
7	chr11:34128200-34132800	Weak transcription	Fetal Brain Male	brain
8	chr11:34128200-34169800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
9	chr11:34128400-34130400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
10	chr11:34128400-34130400	Weak transcription	Rectal Smooth Muscle	rectum
11	chr11:34128400-34130600	Weak transcription	Fetal Kidney	kidney
12	chr11:34128400-34130800	Weak transcription	Primary neutrophils fromperipheralblood	blood
13	chr11:34128400-34131400	Weak transcription	Fetal Intestine Small	intestine
14	chr11:34128600-34130400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
15	chr11:34128600-34130400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
16	chr11:34128600-34130400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
17	chr11:34128600-34130600	Weak transcription	HSMMtube	muscle
18	chr11:34128600-34131000	Weak transcription	Fetal Lung	lung
19	chr11:34128600-34133200	Weak transcription	Fetal Heart	heart
20	chr11:34128600-34133400	Weak transcription	Pancreatic Islets	Pancreatic Islet
21	chr11:34128600-34173200	Strong transcription	iPS-20b Cell Line	embryonic stem cell
22	chr11:34128600-34176400	Strong transcription	Fetal Stomach	stomach
23	chr11:34128800-34130600	Weak transcription	Brain Germinal Matrix	brain
24	chr11:34128800-34130800	Weak transcription	Esophagus	oesophagus
25	chr11:34128800-34130800	Weak transcription	Pancreas	Pancrea
26	chr11:34128800-34138800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
27	chr11:34128800-34163600	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
28	chr11:34128800-34178000	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
29	chr11:34129000-34131000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
30	chr11:34129000-34131400	Strong transcription	Psoas Muscle	Psoas
31	chr11:34129000-34133000	Weak transcription	Stomach Mucosa	stomach
32	chr11:34129000-34147200	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
33	chr11:34129000-34150200	Strong transcription	HUES64 Cell Line	embryonic stem cell
34	chr11:34129000-34157200	Strong transcription	iPS-18 Cell Line	embryonic stem cell
35	chr11:34129000-34170000	Strong transcription	HUES6 Cell Line	embryonic stem cell
36	chr11:34129000-34177400	Strong transcription	Osteobl	bone
37	chr11:34129000-34177800	Strong transcription	HUES48 Cell Line	embryonic stem cell
38	chr11:34129200-34130400	Genic enhancers	Primary T helper naive cells fromperipheralblood	blood
39	chr11:34129200-34135600	Strong transcription	Skeletal Muscle Male	skeletal muscle
40	chr11:34129200-34151200	Strong transcription	Stomach Smooth Muscle	stomach
41	chr11:34129200-34166400	Strong transcription	Primary B cells from peripheral blood	blood
42	chr11:34129200-34168200	Strong transcription	Primary hematopoietic stem cells short term culture	blood
43	chr11:34129200-34169800	Strong transcription	H1 Cell Line	embryonic stem cell
44	chr11:34129200-34169800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
45	chr11:34129200-34174600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
46	chr11:34129200-34177800	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
47	chr11:34129400-34130400	Genic enhancers	Hela-S3	cervix
48	chr11:34129400-34130400	Genic enhancers	K562	blood
49	chr11:34129400-34151200	Strong transcription	Muscle Satellite Cultured Cells	--
50	chr11:34129400-34172600	Strong transcription	Primary T cells fromperipheralblood	blood

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