Variant report

Variant	rs17426347
Chromosome Location	chr5:145370681-145370682
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:145359964..145362333-chr5:145368226..145370873,2	MCF-7	breast:

Extended variants
information (count: 158 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs10463379	0.95[ASN][1000 genomes]
rs10463381	0.81[ASN][1000 genomes]
rs10463382	0.89[ASN][1000 genomes]
rs1056149	0.82[ASN][1000 genomes]
rs11167924	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11167925	0.80[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs11167926	0.80[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs11167927	0.96[CEU][hapmap];0.95[CHB][hapmap];0.94[JPT][hapmap];0.91[ASN][1000 genomes]
rs11167928	0.89[ASN][1000 genomes]
rs11167929	0.89[ASN][1000 genomes]
rs1158395	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1160791	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11738320	0.96[CEU][hapmap];0.89[CHB][hapmap];0.94[JPT][hapmap];0.89[ASN][1000 genomes]
rs11738329	0.96[CEU][hapmap];0.95[CHB][hapmap];0.94[JPT][hapmap];0.90[ASN][1000 genomes]
rs11739231	0.96[CEU][hapmap];0.83[CHB][hapmap];0.88[JPT][hapmap];0.89[ASN][1000 genomes]
rs11739577	0.95[ASN][1000 genomes]
rs11740034	0.91[ASN][1000 genomes]
rs11740294	0.95[ASN][1000 genomes]
rs11740577	0.88[CHB][hapmap];0.93[JPT][hapmap];0.89[ASN][1000 genomes]
rs11740646	0.96[CEU][hapmap];0.89[CHB][hapmap];0.94[JPT][hapmap];0.88[ASN][1000 genomes]
rs11741665	0.96[CEU][hapmap];0.95[CHB][hapmap];0.94[JPT][hapmap];0.90[ASN][1000 genomes]
rs11741958	0.82[ASN][1000 genomes]
rs11742574	0.96[CEU][hapmap];0.95[CHB][hapmap];0.94[JPT][hapmap];0.91[ASN][1000 genomes]
rs11742599	0.96[CEU][hapmap];0.94[CHB][hapmap];0.94[JPT][hapmap];0.91[ASN][1000 genomes]
rs11742606	0.91[ASN][1000 genomes]
rs11743632	0.96[CEU][hapmap];0.95[CHB][hapmap];0.88[JPT][hapmap];0.80[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs11743638	0.96[CEU][hapmap];0.95[CHB][hapmap];0.94[JPT][hapmap];0.91[ASN][1000 genomes]
rs11744031	0.91[ASN][1000 genomes]
rs11744037	0.91[ASN][1000 genomes]
rs11746712	0.96[CEU][hapmap];0.95[CHB][hapmap];0.94[JPT][hapmap];0.90[ASN][1000 genomes]
rs11746953	0.83[ASN][1000 genomes]
rs11747075	0.89[ASN][1000 genomes]
rs11747459	0.96[CEU][hapmap];0.95[CHB][hapmap];0.94[JPT][hapmap];0.91[ASN][1000 genomes]
rs11748213	0.96[CEU][hapmap];0.94[CHB][hapmap];0.94[JPT][hapmap];0.91[ASN][1000 genomes]
rs11748238	0.96[CEU][hapmap];0.95[CHB][hapmap];0.89[JPT][hapmap];0.91[ASN][1000 genomes]
rs11749557	0.95[ASN][1000 genomes]
rs11749886	0.89[ASN][1000 genomes]
rs11750281	0.95[ASN][1000 genomes]
rs11949400	0.97[ASN][1000 genomes]
rs11950760	0.96[CEU][hapmap];0.94[CHB][hapmap];0.94[JPT][hapmap];0.90[ASN][1000 genomes]
rs12187381	0.80[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs12188401	0.89[ASN][1000 genomes]
rs12520083	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12522478	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12652801	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13157647	0.80[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs13159280	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs13163457	0.96[CEU][hapmap];0.89[CHB][hapmap];0.94[JPT][hapmap];0.89[ASN][1000 genomes]
rs13163787	0.95[CEU][hapmap];0.88[CHB][hapmap];0.94[JPT][hapmap];0.89[ASN][1000 genomes]
rs13170195	0.96[CEU][hapmap];0.95[CHB][hapmap];0.94[JPT][hapmap];0.91[ASN][1000 genomes]
rs13171465	0.89[ASN][1000 genomes]
rs13181933	0.96[CEU][hapmap];0.95[CHB][hapmap];0.94[JPT][hapmap];0.91[ASN][1000 genomes]
rs13182298	0.96[CEU][hapmap];0.95[CHB][hapmap];0.94[JPT][hapmap];0.90[ASN][1000 genomes]
rs1558147	0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs166047	0.97[ASN][1000 genomes]
rs168711	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs168712	0.97[ASN][1000 genomes]
rs17212260	0.96[CEU][hapmap];0.95[CHB][hapmap];0.94[JPT][hapmap];0.91[ASN][1000 genomes]
rs17212359	0.96[CEU][hapmap];0.94[JPT][hapmap];0.82[ASN][1000 genomes]
rs173587	0.96[CEU][hapmap];0.89[CHB][hapmap];0.89[JPT][hapmap];0.89[ASN][1000 genomes]
rs17426499	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs17426578	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs17492228	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs17796750	0.96[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs17796792	0.89[ASN][1000 genomes]
rs185089	0.97[ASN][1000 genomes]
rs1859894	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1859895	0.96[CEU][hapmap];0.89[CHB][hapmap];0.94[JPT][hapmap];0.89[ASN][1000 genomes]
rs187465	0.96[CEU][hapmap];0.89[CHB][hapmap];0.94[JPT][hapmap];0.84[ASN][1000 genomes]
rs187466	0.87[ASN][1000 genomes]
rs1974569	0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2024059	0.94[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs2024060	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs2024061	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs2024062	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs2079533	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2079534	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2097969	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2190796	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2215009	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2215010	0.94[ASN][1000 genomes]
rs2400207	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs248771	0.84[ASN][1000 genomes]
rs248772	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs248773	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs248774	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs248775	0.95[ASN][1000 genomes]
rs248776	0.95[ASN][1000 genomes]
rs248777	0.95[ASN][1000 genomes]
rs248778	0.81[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs248779	0.96[CEU][hapmap];0.89[CHB][hapmap];0.94[JPT][hapmap];0.84[ASN][1000 genomes]
rs248780	0.96[CEU][hapmap];0.89[CHB][hapmap];0.94[JPT][hapmap];0.84[ASN][1000 genomes]
rs248781	0.85[ASN][1000 genomes]
rs248783	0.84[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs248784	0.83[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs248785	0.95[ASN][1000 genomes]
rs2895646	0.84[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2906817	0.85[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs2906819	0.85[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs2906820	0.93[ASN][1000 genomes]
rs2962518	0.96[CEU][hapmap];0.95[CHB][hapmap];0.94[JPT][hapmap];0.85[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs2962519	0.96[CEU][hapmap];0.95[CHB][hapmap];0.94[JPT][hapmap];0.85[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs2962520	0.96[CEU][hapmap];0.95[CHB][hapmap];0.94[JPT][hapmap];0.90[ASN][1000 genomes]
rs2962522	0.96[CEU][hapmap];0.89[CHB][hapmap];0.94[JPT][hapmap];0.83[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs35821941	0.89[ASN][1000 genomes]
rs3733937	0.94[CHB][hapmap];0.94[JPT][hapmap];0.89[ASN][1000 genomes]
rs4141240	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4266461	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs4502881	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs4526155	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs4571521	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4912703	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4913060	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs62392691	0.91[ASN][1000 genomes]
rs6580402	0.95[ASN][1000 genomes]
rs6580403	0.96[CEU][hapmap];0.95[CHB][hapmap];0.94[JPT][hapmap];0.91[ASN][1000 genomes]
rs6580404	0.96[CEU][hapmap];0.95[CHB][hapmap];0.94[JPT][hapmap];0.80[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs6580406	0.96[CEU][hapmap];0.89[CHB][hapmap];0.94[JPT][hapmap];0.84[ASN][1000 genomes]
rs6858982	0.80[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs6864121	0.80[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs6869873	0.90[ASN][1000 genomes]
rs6871772	0.96[CEU][hapmap];0.95[CHB][hapmap];0.94[JPT][hapmap];0.80[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs6872997	0.95[ASN][1000 genomes]
rs6876287	0.95[ASN][1000 genomes]
rs6876373	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6876582	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6877694	0.95[ASN][1000 genomes]
rs6879927	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6879988	0.96[CEU][hapmap];0.95[CHB][hapmap];0.94[JPT][hapmap];0.91[ASN][1000 genomes]
rs6882211	0.90[ASN][1000 genomes]
rs6889715	0.89[ASN][1000 genomes]
rs6890967	0.88[CEU][hapmap];0.95[CHB][hapmap];0.94[JPT][hapmap];0.90[ASN][1000 genomes]
rs6891636	0.96[CEU][hapmap];0.89[CHB][hapmap];0.89[JPT][hapmap];0.82[ASN][1000 genomes]
rs6891869	0.90[ASN][1000 genomes]
rs6893852	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6894532	0.96[CEU][hapmap];0.89[CHB][hapmap];0.94[JPT][hapmap];0.89[ASN][1000 genomes]
rs6895584	0.91[ASN][1000 genomes]
rs6896268	0.90[ASN][1000 genomes]
rs6897800	0.95[ASN][1000 genomes]
rs6898375	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6898385	0.91[ASN][1000 genomes]
rs6898427	0.89[ASN][1000 genomes]
rs740368	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7444347	0.95[ASN][1000 genomes]
rs758037	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs758038	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7703851	0.84[ASN][1000 genomes]
rs7706656	0.96[CEU][hapmap];0.95[CHB][hapmap];0.94[JPT][hapmap];0.80[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs7713773	0.80[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs7715679	0.96[CEU][hapmap];0.89[CHB][hapmap];0.94[JPT][hapmap];0.84[ASN][1000 genomes]
rs7715846	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7716076	0.82[ASN][1000 genomes]
rs7730462	0.80[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs7733648	0.95[ASN][1000 genomes]
rs9325000	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9325002	0.96[CEU][hapmap];0.89[CHB][hapmap];0.94[JPT][hapmap];0.89[ASN][1000 genomes]
rs977204	0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs977205	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs17426347	LARS	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:145362200-145399200	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr5:145362400-145372600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr5:145362400-145372600	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
4	chr5:145362600-145404400	Weak transcription	Skeletal Muscle Male	skeletal muscle
5	chr5:145363400-145372600	Weak transcription	Esophagus	oesophagus
6	chr5:145363400-145372800	Weak transcription	Left Ventricle	heart
7	chr5:145364400-145385800	Weak transcription	Pancreas	Pancrea
8	chr5:145366000-145371800	Enhancers	Fetal Intestine Large	intestine
9	chr5:145366200-145371800	Enhancers	Fetal Intestine Small	intestine
10	chr5:145366200-145372800	Weak transcription	Fetal Stomach	stomach
11	chr5:145367400-145372000	Enhancers	Rectal Mucosa Donor 31	rectum
12	chr5:145367400-145372600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
13	chr5:145368400-145371000	Enhancers	Stomach Mucosa	stomach
14	chr5:145368400-145386600	Weak transcription	HepG2	liver
15	chr5:145368800-145371600	Enhancers	Duodenum Mucosa	Duodenum
16	chr5:145369400-145393400	Weak transcription	Skeletal Muscle Female	skeletal muscle
17	chr5:145369600-145371200	Genic enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
18	chr5:145369600-145393400	Weak transcription	NH-A	brain
19	chr5:145369800-145371200	Enhancers	Breast Myoepithelial Primary Cells	Breast
20	chr5:145370000-145375600	Weak transcription	Liver	Liver
21	chr5:145370000-145392800	Weak transcription	Colonic Mucosa	Colon
22	chr5:145370200-145371000	Enhancers	Osteobl	bone
23	chr5:145370200-145372600	Weak transcription	Sigmoid Colon	Sigmoid Colon
24	chr5:145370600-145370800	Enhancers	Gastric	stomach
25	chr5:145370600-145370800	Enhancers	NHEK	skin
26	chr5:145370600-145371000	Enhancers	Muscle Satellite Cultured Cells	--
27	chr5:145370600-145371000	Enhancers	HMEC	breast
28	chr5:145370600-145371200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
29	chr5:145370600-145371200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
30	chr5:145370600-145371200	Flanking Active TSS	Rectal Mucosa Donor 29	rectum

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