Variant report

Variant	rs11236042
Chromosome Location	chr11:73983454-73983455
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr11:73978636..73981010-chr11:73982183..73983905,2	K562	blood:
2	chr11:73982258..73984501-chr11:73987908..73990557,3	K562	blood:
3	chr11:73982319..73984858-chr11:73989296..73991089,2	MCF-7	breast:
4	chr11:73979510..73981185-chr11:73981417..73983683,2	K562	blood:

Variant related genes	Relation type
ENSG00000149380	Chromatin interaction

Extended variants
information (count: 73 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:68)

rs_ID	r²[population]
rs10219237	0.81[TSI][hapmap]
rs10431176	0.83[CEU][hapmap];0.87[CHD][hapmap];0.87[TSI][hapmap];0.81[EUR][1000 genomes]
rs10459047	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10898957	0.87[CHD][hapmap]
rs10898962	0.83[CEU][hapmap];0.87[CHD][hapmap];0.87[TSI][hapmap]
rs10898964	0.82[EUR][1000 genomes]
rs10898966	0.83[CEU][hapmap];0.85[CHD][hapmap];0.87[TSI][hapmap];0.84[EUR][1000 genomes]
rs10898973	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10898974	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10898975	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.90[LWK][hapmap];1.00[MEX][hapmap];0.81[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];1.00[ASN][1000 genomes]
rs10898976	0.82[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];1.00[TSI][hapmap];0.83[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10898980	1.00[CEU][hapmap];0.85[CHD][hapmap];0.84[GIH][hapmap];0.87[JPT][hapmap];0.90[MEX][hapmap];1.00[TSI][hapmap];0.85[EUR][1000 genomes]
rs11235994	0.84[CHD][hapmap]
rs11235995	0.87[CHD][hapmap]
rs11236000	0.87[CHD][hapmap]
rs11236029	0.83[CEU][hapmap];0.87[CHD][hapmap];0.87[TSI][hapmap]
rs11236043	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11236044	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11236052	1.00[CEU][hapmap];0.90[CHB][hapmap];0.93[JPT][hapmap];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11236053	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];0.92[GIH][hapmap];0.93[JPT][hapmap];0.90[MEX][hapmap];1.00[TSI][hapmap];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11236054	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11236055	0.88[EUR][1000 genomes]
rs11236060	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11236063	1.00[CEU][hapmap];0.85[JPT][hapmap];0.92[EUR][1000 genomes]
rs11236071	1.00[CEU][hapmap];0.85[CHD][hapmap];0.88[GIH][hapmap];0.87[JPT][hapmap];0.90[MEX][hapmap];1.00[TSI][hapmap];0.84[EUR][1000 genomes]
rs11236072	0.85[EUR][1000 genomes]
rs11236077	1.00[CEU][hapmap];0.88[GIH][hapmap];0.80[JPT][hapmap];0.90[MEX][hapmap];0.94[TSI][hapmap];0.84[EUR][1000 genomes]
rs11236082	0.84[EUR][1000 genomes]
rs11236083	0.85[EUR][1000 genomes]
rs11236092	1.00[CEU][hapmap];0.81[GIH][hapmap];0.88[TSI][hapmap]
rs11600314	0.87[CHD][hapmap]
rs11602451	0.87[CHD][hapmap]
rs11604713	0.87[CHD][hapmap]
rs11608147	0.87[CHD][hapmap]
rs12049823	0.85[CEU][hapmap]
rs12223320	0.87[CHD][hapmap]
rs12225215	0.85[EUR][1000 genomes]
rs12225446	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12574038	0.87[CHD][hapmap]
rs12574047	0.87[CHD][hapmap]
rs12574960	0.81[EUR][1000 genomes]
rs17132964	1.00[CEU][hapmap];0.86[JPT][hapmap];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1944971	0.83[CEU][hapmap];0.87[CHD][hapmap];0.87[TSI][hapmap];0.82[EUR][1000 genomes]
rs2178000	0.87[CHD][hapmap]
rs2282488	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.90[LWK][hapmap];0.91[MEX][hapmap];0.81[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];1.00[ASN][1000 genomes]
rs2302508	0.86[EUR][1000 genomes]
rs3741132	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.88[JPT][hapmap];1.00[MEX][hapmap];0.83[TSI][hapmap];0.95[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3741133	0.83[CEU][hapmap];0.87[CHD][hapmap];0.87[TSI][hapmap];0.82[EUR][1000 genomes]
rs3888908	0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3894652	0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4121668	0.92[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap];0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs515924	0.85[CEU][hapmap]
rs550552	0.92[CEU][hapmap]
rs58852370	0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs588725	0.85[CEU][hapmap]
rs61288268	0.85[EUR][1000 genomes]
rs61902380	0.94[EUR][1000 genomes]
rs61902404	0.85[EUR][1000 genomes]
rs625532	0.91[CEU][hapmap]
rs630078	0.92[CEU][hapmap]
rs639228	0.92[CEU][hapmap]
rs658976	0.92[CEU][hapmap]
rs676103	0.85[CEU][hapmap]
rs7110734	0.87[CHD][hapmap]
rs7117465	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.89[GIH][hapmap];0.88[JPT][hapmap];0.82[MEX][hapmap];0.94[ASN][1000 genomes]
rs7125032	0.87[CHD][hapmap]
rs7949639	0.83[CEU][hapmap];0.86[JPT][hapmap];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7951617	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.90[LWK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2757451	chr11:73842609-74545888	Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Enhancers Genic enhancers Bivalent Enhancer Active TSS Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	87 gene(s)	inside rSNPs	diseases
2	esv2759837	chr11:73842609-74557597	Flanking Active TSS Enhancers Bivalent/Poised TSS Weak transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	88 gene(s)	inside rSNPs	diseases
3	esv34979	chr11:73878688-74533452	Enhancers Weak transcription Active TSS ZNF genes & repeats Strong transcription Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	85 gene(s)	inside rSNPs	diseases
4	esv2758277	chr11:73887567-74557597	Weak transcription Enhancers Strong transcription Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	85 gene(s)	inside rSNPs	diseases
5	nsv825994	chr11:73936667-74534455	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	83 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs11236042	DGAT2	cis	parietal	SCAN
rs11236042	P4HA3	cis	cerebellum	SCAN
rs11236042	PPME1	cis	cerebellum	SCAN

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:73969400-73987600	Weak transcription	NH-A	brain
2	chr11:73970000-73987600	Weak transcription	Muscle Satellite Cultured Cells	--
3	chr11:73979400-73987800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
4	chr11:73980200-73989400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr11:73980600-73988000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
6	chr11:73980800-73988000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
7	chr11:73981000-73987200	Weak transcription	Osteobl	bone
8	chr11:73982200-73984400	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
9	chr11:73982400-73988800	Weak transcription	Hela-S3	cervix
10	chr11:73983000-73984000	Strong transcription	A549	lung
11	chr11:73983000-73984800	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
12	chr11:73983000-73985200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
13	chr11:73983200-73983600	Enhancers	HSMM	muscle
14	chr11:73983200-73984000	Enhancers	HSMMtube	muscle

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