Variant report

Variant	rs6416159
Chromosome Location	chr11:9036308-9036309
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr11:9035751..9037447-chr11:9111301..9113742,2	MCF-7	breast:
2	chr11:9020957..9023609-chr11:9034116..9037224,3	K562	blood:
3	chr11:9031317..9033986-chr11:9035729..9038616,2	K562	blood:
4	chr11:9034413..9036493-chr11:9139269..9141678,2	K562	blood:
5	chr11:9029342..9032817-chr11:9034823..9038616,4	K562	blood:
6	chr11:9035983..9037964-chr11:9086793..9088596,2	K562	blood:
7	chr11:9034962..9037892-chr11:9111101..9113164,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000264984	Chromatin interaction
ENSG00000175356	Chromatin interaction

Extended variants
information (count: 65 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:61)

rs_ID	r²[population]
rs10769982	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10840149	1.00[EUR][1000 genomes]
rs10840152	0.89[AMR][1000 genomes]
rs11042155	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1989143	1.00[EUR][1000 genomes]
rs2195812	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2256067	1.00[EUR][1000 genomes]
rs2262323	1.00[EUR][1000 genomes]
rs2436178	1.00[EUR][1000 genomes]
rs2568021	1.00[EUR][1000 genomes]
rs2568023	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2568024	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2568026	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2568027	1.00[EUR][1000 genomes]
rs2568030	0.87[ASW][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2568041	1.00[EUR][1000 genomes]
rs2568046	0.87[YRI][hapmap];0.87[AMR][1000 genomes]
rs2568055	1.00[EUR][1000 genomes]
rs2568058	0.80[YRI][hapmap];1.00[EUR][1000 genomes]
rs2568060	1.00[EUR][1000 genomes]
rs2568063	1.00[EUR][1000 genomes]
rs2568072	1.00[EUR][1000 genomes]
rs2568083	0.91[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2653561	1.00[EUR][1000 genomes]
rs2653563	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2653571	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2653579	0.89[AMR][1000 genomes]
rs2653583	1.00[EUR][1000 genomes]
rs2653584	0.80[YRI][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2653585	1.00[EUR][1000 genomes]
rs2653600	1.00[EUR][1000 genomes]
rs2653602	0.88[MKK][hapmap]
rs2653608	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2653614	1.00[EUR][1000 genomes]
rs2653615	1.00[EUR][1000 genomes]
rs2742469	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2742479	1.00[EUR][1000 genomes]
rs2742482	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2742507	1.00[EUR][1000 genomes]
rs2742508	0.83[YRI][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2742518	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2742526	1.00[EUR][1000 genomes]
rs2742527	1.00[EUR][1000 genomes]
rs2742539	1.00[EUR][1000 genomes]
rs2742543	1.00[EUR][1000 genomes]
rs2742551	1.00[EUR][1000 genomes]
rs6416158	1.00[EUR][1000 genomes]
rs7104415	1.00[ASW][hapmap];0.85[LWK][hapmap];0.80[MKK][hapmap];0.92[YRI][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7119887	0.83[LWK][hapmap];0.80[MKK][hapmap];0.92[YRI][hapmap]
rs73410028	1.00[EUR][1000 genomes]
rs73410031	1.00[EUR][1000 genomes]
rs73410040	1.00[EUR][1000 genomes]
rs7395934	0.87[ASW][hapmap];0.85[LWK][hapmap];0.81[MKK][hapmap];0.83[YRI][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7396042	1.00[EUR][1000 genomes]
rs7396427	0.92[YRI][hapmap];1.00[EUR][1000 genomes]
rs7479205	0.92[AFR][1000 genomes]
rs7479998	1.00[EUR][1000 genomes]
rs7932678	1.00[EUR][1000 genomes]
rs7936297	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7939313	0.81[AFR][1000 genomes]
rs7950826	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3413845	chr11:8887279-9285127	Enhancers Transcr. at gene 5' and 3' Weak transcription Flanking Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
2	nsv896984	chr11:8988550-9090408	Bivalent Enhancer Bivalent/Poised TSS Enhancers Flanking Bivalent TSS/Enh Weak transcription Strong transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
3	esv33264	chr11:9007612-9311131	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
4	nsv896985	chr11:9013002-9152463	Weak transcription Enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	18 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6416159	C11orf17	cis	lymphoblastoid	seeQTL

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:9026200-9038800	Weak transcription	Right Atrium	heart
2	chr11:9026400-9037400	Weak transcription	Stomach Smooth Muscle	stomach
3	chr11:9034600-9041600	Weak transcription	Gastric	stomach
4	chr11:9035200-9051800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
5	chr11:9035400-9037400	Weak transcription	Esophagus	oesophagus

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