Variant report

Variant	rs11236517
Chromosome Location	chr11:75452721-75452722
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:75445518..75448042-chr11:75450594..75453068,2	MCF-7	breast:
2	chr11:75451470..75453801-chr11:75470298..75473019,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000062282	Chromatin interaction

Extended variants
information (count: 117 )
Associated
traits (count: 6 )

rSNPs within LD-proxies of this variant (count:115)

rs_ID	r²[population]
rs10160784	0.81[CHB][hapmap];0.86[ASN][1000 genomes]
rs10160802	0.90[CEU][hapmap];0.95[GIH][hapmap];0.92[MEX][hapmap];1.00[TSI][hapmap];0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1017713	0.93[CHB][hapmap];0.81[JPT][hapmap];0.82[TSI][hapmap];0.86[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs10219339	0.92[ASW][hapmap];0.93[CHB][hapmap];0.81[JPT][hapmap];0.84[MEX][hapmap];0.82[TSI][hapmap];0.86[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs10793124	0.92[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];0.95[GIH][hapmap];0.94[JPT][hapmap];0.80[LWK][hapmap];0.92[MEX][hapmap];1.00[TSI][hapmap];0.82[YRI][hapmap];0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10793125	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[CHD][hapmap];0.94[JPT][hapmap];0.92[TSI][hapmap];0.87[YRI][hapmap];0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10793126	0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10793127	0.82[AFR][1000 genomes];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10793128	0.87[AFR][1000 genomes];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10793129	0.88[EUR][1000 genomes]
rs10793130	0.88[EUR][1000 genomes]
rs10793132	0.86[CHB][hapmap];0.83[ASN][1000 genomes]
rs10793133	0.83[ASN][1000 genomes]
rs10899105	0.88[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs10899109	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10899110	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10899112	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10899113	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10899114	0.90[CEU][hapmap];0.90[EUR][1000 genomes]
rs10899115	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10899116	0.90[CEU][hapmap];0.93[CHB][hapmap];0.94[JPT][hapmap];0.91[TSI][hapmap];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10899119	0.93[CHB][hapmap];0.81[JPT][hapmap];0.84[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs10899120	0.86[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs10899121	0.93[CHB][hapmap];0.81[JPT][hapmap];0.82[TSI][hapmap];0.85[ASN][1000 genomes]
rs10899122	0.93[CHB][hapmap];0.86[JPT][hapmap];0.85[ASN][1000 genomes]
rs10899123	0.93[CHB][hapmap];0.81[JPT][hapmap];0.86[ASN][1000 genomes]
rs10899124	0.86[CHB][hapmap];0.81[JPT][hapmap];0.82[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs10899127	0.85[ASN][1000 genomes]
rs10899128	0.86[CHB][hapmap];0.81[JPT][hapmap];0.85[ASN][1000 genomes]
rs10899129	0.86[CHB][hapmap];0.81[JPT][hapmap];0.84[ASN][1000 genomes]
rs10899131	0.83[ASN][1000 genomes]
rs10899132	0.83[ASN][1000 genomes]
rs10899133	0.83[ASN][1000 genomes]
rs10899134	0.86[CHB][hapmap];0.83[ASN][1000 genomes]
rs10899135	0.83[ASN][1000 genomes]
rs10899136	0.86[CHB][hapmap];0.83[ASN][1000 genomes]
rs10899137	0.83[ASN][1000 genomes]
rs10899138	0.85[CHB][hapmap]
rs10899141	0.86[CHB][hapmap]
rs10899145	0.86[CHB][hapmap]
rs11236507	0.84[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs11236508	0.88[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs11236509	0.88[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs11236511	1.00[CHB][hapmap];0.93[CHD][hapmap];1.00[GIH][hapmap];0.94[JPT][hapmap];0.81[LWK][hapmap];1.00[MEX][hapmap];0.86[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs11236514	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.94[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11236515	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.94[JPT][hapmap];0.84[MEX][hapmap];1.00[TSI][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11236516	0.92[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.94[JPT][hapmap];0.95[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11236518	0.92[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.94[JPT][hapmap];0.95[LWK][hapmap];1.00[MEX][hapmap];0.87[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11236519	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11236525	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11236526	0.90[EUR][1000 genomes]
rs11236527	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11236528	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11236530	0.93[CHB][hapmap];0.81[JPT][hapmap];0.86[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs11236531	0.93[CHB][hapmap];0.81[JPT][hapmap];0.84[MEX][hapmap];0.82[TSI][hapmap];0.85[ASN][1000 genomes]
rs11236533	0.86[CHB][hapmap];0.81[JPT][hapmap];0.86[ASN][1000 genomes]
rs11236534	0.93[CHB][hapmap];0.81[JPT][hapmap];0.86[ASN][1000 genomes]
rs11236537	0.82[ASN][1000 genomes]
rs11236538	0.83[ASN][1000 genomes]
rs11236539	0.83[ASN][1000 genomes]
rs11236540	0.86[CHB][hapmap];0.83[ASN][1000 genomes]
rs11236542	0.83[ASN][1000 genomes]
rs11236543	0.83[ASN][1000 genomes]
rs11236545	0.83[ASN][1000 genomes]
rs11236546	0.86[CHB][hapmap];0.83[ASN][1000 genomes]
rs11236552	0.86[CHB][hapmap]
rs11236553	0.86[CHB][hapmap]
rs11236554	0.86[CHB][hapmap]
rs11501918	0.85[ASN][1000 genomes]
rs11821808	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11822903	0.84[CHB][hapmap];0.84[ASN][1000 genomes]
rs11823869	0.93[CHB][hapmap];0.80[JPT][hapmap];0.84[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs12222542	0.93[CHB][hapmap];0.81[JPT][hapmap];0.86[ASN][1000 genomes]
rs12222995	0.93[CHB][hapmap];0.81[JPT][hapmap];0.82[TSI][hapmap];0.86[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs12278224	0.86[CHB][hapmap]
rs12278257	0.86[CHB][hapmap]
rs12285853	0.83[ASN][1000 genomes]
rs1458836	0.86[CHB][hapmap];0.81[JPT][hapmap];0.84[ASN][1000 genomes]
rs1806895	0.90[EUR][1000 genomes]
rs2004638	0.90[CEU][hapmap]
rs2008476	0.90[CEU][hapmap];0.93[CHB][hapmap];0.89[CHD][hapmap];0.82[GIH][hapmap];0.94[JPT][hapmap];0.92[MEX][hapmap];1.00[TSI][hapmap];0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2168947	0.85[MEX][hapmap]
rs28802056	0.80[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs3060	0.85[MEX][hapmap]
rs36016715	0.82[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs3740849	0.86[CHB][hapmap];0.81[JPT][hapmap];0.84[ASN][1000 genomes]
rs3740850	0.86[CHB][hapmap];0.81[JPT][hapmap];0.84[ASN][1000 genomes]
rs499974	0.86[ASN][1000 genomes]
rs531117	0.87[CHB][hapmap];0.86[ASN][1000 genomes]
rs559355	0.86[ASN][1000 genomes]
rs57188913	0.90[EUR][1000 genomes]
rs58340821	0.86[ASN][1000 genomes]
rs58411334	0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs59913369	0.90[EUR][1000 genomes]
rs600518	0.86[ASN][1000 genomes]
rs600626	0.86[ASN][1000 genomes]
rs60677263	0.82[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs643884	0.87[CHB][hapmap];0.86[ASN][1000 genomes]
rs644361	0.87[CHB][hapmap];0.86[ASN][1000 genomes]
rs6592615	0.86[CHB][hapmap]
rs7101806	0.86[CHB][hapmap]
rs7106736	0.83[ASN][1000 genomes]
rs7108178	0.86[CHB][hapmap]
rs7110517	0.83[ASN][1000 genomes]
rs7118039	0.86[CHB][hapmap]
rs7118293	0.85[ASN][1000 genomes]
rs7126727	0.80[JPT][hapmap];0.85[ASN][1000 genomes]
rs7128716	0.83[ASN][1000 genomes]
rs72995678	0.88[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs72997616	0.88[AFR][1000 genomes];0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs72997623	0.84[ASN][1000 genomes]
rs7933235	0.86[CHB][hapmap]
rs7944950	0.88[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs7947418	0.86[CHB][hapmap]
rs7947512	0.86[ASN][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	esv3381903	chr11:75123498-75587233	Bivalent Enhancer Strong transcription Enhancers Bivalent/Poised TSS Genic enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	81 gene(s)	inside rSNPs	diseases
2	nsv897924	chr11:75424546-75678647	Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Active TSS Strong transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases

mRNA abundance (count:6)

SNP	Gene	Cis/trans	Tissue	Source
rs11236517	RP11-535A19.1	cis	Whole Blood	GTEx
rs11236517	ARAP1	cis	parietal	SCAN
rs11236517	B3GNT6	cis	parietal	SCAN
rs11236517	DGAT2	cis	Whole Blood	GTEx
rs11236517	INPPL1	cis	parietal	SCAN
rs11236517	SLC43A2	trans	parietal	SCAN

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:75445200-75455000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr11:75446000-75454200	Weak transcription	Fetal Muscle Trunk	muscle
3	chr11:75446000-75454800	Weak transcription	Psoas Muscle	Psoas
4	chr11:75446800-75454800	Weak transcription	Rectal Mucosa Donor 31	rectum
5	chr11:75448600-75453200	Weak transcription	Fetal Intestine Small	intestine
6	chr11:75448800-75453800	Weak transcription	Fetal Intestine Large	intestine
7	chr11:75450400-75453800	Weak transcription	HepG2	liver
8	chr11:75451400-75453200	Weak transcription	Stomach Mucosa	stomach
9	chr11:75451600-75452800	Weak transcription	Liver	Liver

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