Variant report

Variant	rs17700360
Chromosome Location	chr11:34130406-34130407
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: 114 )
Associated
traits (count: 5 )

rSNPs within LD-proxies of this variant (count:114)

rs_ID	r²[population]
rs10047428	1.00[CEU][hapmap];0.87[EUR][1000 genomes]
rs10047487	0.87[EUR][1000 genomes]
rs10501132	1.00[CEU][hapmap];0.85[YRI][hapmap];0.83[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs10501133	1.00[CEU][hapmap];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10836150	0.87[ASW][hapmap];0.89[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.83[TSI][hapmap]
rs11552143	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16925114	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs16925115	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs16925117	0.85[YRI][hapmap]
rs16925121	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs16925126	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs16925134	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs16925147	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs16925153	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.80[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs16925155	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs16925160	1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16925163	1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16925167	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16925170	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16925173	1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16925175	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16925177	1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16925181	1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16925182	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16925183	1.00[CEU][hapmap];0.92[GIH][hapmap];1.00[TSI][hapmap]
rs16925184	1.00[CEU][hapmap];1.00[GIH][hapmap];0.81[LWK][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16925219	1.00[CEU][hapmap];0.85[YRI][hapmap];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs16926099	0.86[EUR][1000 genomes]
rs17367679	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs17699090	0.83[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs17699505	1.00[CEU][hapmap];0.85[YRI][hapmap];0.83[AFR][1000 genomes];0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs17699517	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs17699883	1.00[CEU][hapmap];0.85[YRI][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17700132	1.00[CEU][hapmap];0.92[GIH][hapmap];1.00[MEX][hapmap];0.87[MKK][hapmap];1.00[TSI][hapmap];0.85[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17700714	0.87[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.91[MKK][hapmap];1.00[TSI][hapmap];0.85[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17700877	1.00[CEU][hapmap];0.83[YRI][hapmap];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs17701015	1.00[CEU][hapmap];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs17771070	0.91[GIH][hapmap];1.00[MEX][hapmap]
rs17771981	0.86[EUR][1000 genomes]
rs17777885	1.00[CEU][hapmap];0.80[YRI][hapmap];0.83[AFR][1000 genomes];0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs17777985	1.00[CEU][hapmap];0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs17778417	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17778759	0.87[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.91[MKK][hapmap];1.00[TSI][hapmap];0.85[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1883958	1.00[CEU][hapmap];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]
rs2421459	0.87[ASW][hapmap];0.89[CEU][hapmap];0.91[GIH][hapmap];1.00[MEX][hapmap];0.83[TSI][hapmap]
rs2467392	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2467393	1.00[CEU][hapmap];0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2473929	1.00[CEU][hapmap];0.92[GIH][hapmap];1.00[TSI][hapmap];0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2473932	1.00[CEU][hapmap];0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2957481	1.00[CEU][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2957509	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2957514	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];0.95[EUR][1000 genomes]
rs2957518	0.82[GIH][hapmap]
rs2982587	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2982617	1.00[CEU][hapmap];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2982619	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs36117528	0.84[EUR][1000 genomes]
rs4074368	0.86[EUR][1000 genomes]
rs4237663	1.00[CEU][hapmap];0.87[EUR][1000 genomes]
rs4587708	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];0.87[EUR][1000 genomes]
rs4755357	0.84[EUR][1000 genomes]
rs4755359	1.00[CEU][hapmap];0.87[EUR][1000 genomes]
rs4756095	1.00[GIH][hapmap];0.83[TSI][hapmap]
rs4756101	0.82[EUR][1000 genomes]
rs4756109	0.90[CEU][hapmap]
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	0.97[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	0.97[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	0.83[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	0.90[CEU][hapmap];0.81[EUR][1000 genomes]
rs7127581	1.00[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs73497030	0.84[EUR][1000 genomes]
rs73497035	0.97[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs73497050	0.86[EUR][1000 genomes]
rs73497064	1.00[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	1.00[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	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7925527	1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7933297	1.00[CEU][hapmap];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7944654	1.00[CEU][hapmap];0.87[EUR][1000 genomes]
rs7951527	1.00[CEU][hapmap]
rs8191	1.00[CEU][hapmap];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs958332	0.90[CEU][hapmap];0.86[EUR][1000 genomes]

mRNA abundance (count:5)

SNP	Gene	Cis/trans	Tissue	Source
rs17700360	NAT10	cis	parietal	SCAN
rs17700360	NBAS	trans	parietal	SCAN
rs17700360	NAT10	cis	cerebellum	SCAN
rs17700360	NAT10	cis	Stomach	GTEx
rs17700360	ABTB2	cis	parietal	SCAN

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	chr11:34128400-34130600	Weak transcription	Fetal Kidney	kidney
10	chr11:34128400-34130800	Weak transcription	Primary neutrophils fromperipheralblood	blood
11	chr11:34128400-34131400	Weak transcription	Fetal Intestine Small	intestine
12	chr11:34128600-34130600	Weak transcription	HSMMtube	muscle
13	chr11:34128600-34131000	Weak transcription	Fetal Lung	lung
14	chr11:34128600-34133200	Weak transcription	Fetal Heart	heart
15	chr11:34128600-34133400	Weak transcription	Pancreatic Islets	Pancreatic Islet
16	chr11:34128600-34173200	Strong transcription	iPS-20b Cell Line	embryonic stem cell
17	chr11:34128600-34176400	Strong transcription	Fetal Stomach	stomach
18	chr11:34128800-34130600	Weak transcription	Brain Germinal Matrix	brain
19	chr11:34128800-34130800	Weak transcription	Esophagus	oesophagus
20	chr11:34128800-34130800	Weak transcription	Pancreas	Pancrea
21	chr11:34128800-34138800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
22	chr11:34128800-34163600	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
23	chr11:34128800-34178000	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
24	chr11:34129000-34131000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
25	chr11:34129000-34131400	Strong transcription	Psoas Muscle	Psoas
26	chr11:34129000-34133000	Weak transcription	Stomach Mucosa	stomach
27	chr11:34129000-34147200	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
28	chr11:34129000-34150200	Strong transcription	HUES64 Cell Line	embryonic stem cell
29	chr11:34129000-34157200	Strong transcription	iPS-18 Cell Line	embryonic stem cell
30	chr11:34129000-34170000	Strong transcription	HUES6 Cell Line	embryonic stem cell
31	chr11:34129000-34177400	Strong transcription	Osteobl	bone
32	chr11:34129000-34177800	Strong transcription	HUES48 Cell Line	embryonic stem cell
33	chr11:34129200-34135600	Strong transcription	Skeletal Muscle Male	skeletal muscle
34	chr11:34129200-34151200	Strong transcription	Stomach Smooth Muscle	stomach
35	chr11:34129200-34166400	Strong transcription	Primary B cells from peripheral blood	blood
36	chr11:34129200-34168200	Strong transcription	Primary hematopoietic stem cells short term culture	blood
37	chr11:34129200-34169800	Strong transcription	H1 Cell Line	embryonic stem cell
38	chr11:34129200-34169800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
39	chr11:34129200-34174600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
40	chr11:34129200-34177800	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
41	chr11:34129400-34151200	Strong transcription	Muscle Satellite Cultured Cells	--
42	chr11:34129400-34172600	Strong transcription	Primary T cells fromperipheralblood	blood
43	chr11:34129400-34173400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
44	chr11:34129400-34175600	Strong transcription	Fetal Thymus	thymus
45	chr11:34129600-34132200	Strong transcription	Thymus	Thymus
46	chr11:34129600-34134800	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
47	chr11:34129600-34135600	Strong transcription	ES-I3 Cell Line	embryonic stem cell
48	chr11:34129600-34137400	Strong transcription	Fetal Brain Female	brain
49	chr11:34129600-34137600	Strong transcription	Colon Smooth Muscle	Colon
50	chr11:34129600-34137800	Strong transcription	H9 Cell Line	embryonic stem cell

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