Variant report

Variant	rs2381438
Chromosome Location	chr9:6342855-6342856
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 101 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:91)

rs_ID	r²[population]
rs10115294	0.82[CEU][hapmap];0.87[EUR][1000 genomes]
rs10123132	0.82[CEU][hapmap]
rs10123605	0.87[EUR][1000 genomes]
rs10125053	0.82[CEU][hapmap]
rs10125090	0.82[CEU][hapmap]
rs10125313	0.82[CEU][hapmap];1.00[GIH][hapmap];0.85[TSI][hapmap];0.87[EUR][1000 genomes]
rs1037885	0.87[ASW][hapmap];0.82[CEU][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];1.00[TSI][hapmap];0.87[AFR][1000 genomes];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1048279	0.80[EUR][1000 genomes]
rs10491838	0.84[EUR][1000 genomes]
rs10739096	0.87[EUR][1000 genomes]
rs10739101	0.84[EUR][1000 genomes]
rs10739103	0.82[CEU][hapmap];0.85[TSI][hapmap];0.84[EUR][1000 genomes]
rs10739104	0.84[EUR][1000 genomes]
rs10758762	0.91[EUR][1000 genomes]
rs10758763	0.82[CEU][hapmap];0.91[EUR][1000 genomes]
rs10758768	0.87[EUR][1000 genomes]
rs10815400	0.87[EUR][1000 genomes]
rs10815401	0.87[EUR][1000 genomes]
rs10815430	0.82[CEU][hapmap];1.00[GIH][hapmap];0.85[TSI][hapmap];0.87[EUR][1000 genomes]
rs1156869	0.82[CEU][hapmap];0.84[EUR][1000 genomes]
rs13283687	0.82[CEU][hapmap];0.80[EUR][1000 genomes]
rs13284032	1.00[GIH][hapmap]
rs13285152	0.80[EUR][1000 genomes]
rs13285458	0.80[EUR][1000 genomes]
rs13291494	0.80[EUR][1000 genomes]
rs13293673	1.00[EUR][1000 genomes]
rs13296481	0.80[EUR][1000 genomes]
rs13298872	0.87[EUR][1000 genomes]
rs13299896	0.80[EUR][1000 genomes]
rs13302032	0.80[EUR][1000 genomes]
rs1330381	0.87[EUR][1000 genomes]
rs1381038	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1407357	0.91[EUR][1000 genomes]
rs1407358	0.91[EUR][1000 genomes]
rs1412420	0.80[EUR][1000 genomes]
rs1854709	0.80[EUR][1000 genomes]
rs2000198	0.80[EUR][1000 genomes]
rs2019737	0.91[EUR][1000 genomes]
rs2051003	0.80[EUR][1000 genomes]
rs2150971	0.80[EUR][1000 genomes]
rs28615746	0.87[EUR][1000 genomes]
rs2890707	0.82[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.83[MKK][hapmap];1.00[TSI][hapmap];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs34530211	0.80[EUR][1000 genomes]
rs34581400	0.80[EUR][1000 genomes]
rs35301257	0.80[EUR][1000 genomes]
rs35408061	0.80[EUR][1000 genomes]
rs36089474	0.80[EUR][1000 genomes]
rs3847262	0.81[ASW][hapmap];0.82[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs3858051	0.91[EUR][1000 genomes]
rs4008347	0.87[EUR][1000 genomes]
rs424119	0.84[EUR][1000 genomes]
rs4475552	0.84[EUR][1000 genomes]
rs4742172	0.82[CEU][hapmap];1.00[GIH][hapmap];0.85[TSI][hapmap];0.87[EUR][1000 genomes]
rs4742177	0.91[EUR][1000 genomes]
rs4742180	0.87[EUR][1000 genomes]
rs4742198	0.82[CEU][hapmap];0.84[EUR][1000 genomes]
rs4742200	0.84[EUR][1000 genomes]
rs4742203	0.84[EUR][1000 genomes]
rs503315	0.84[EUR][1000 genomes]
rs553048	0.80[EUR][1000 genomes]
rs6477060	0.80[EUR][1000 genomes]
rs6477067	0.91[EUR][1000 genomes]
rs67541153	0.91[EUR][1000 genomes]
rs7021445	0.87[EUR][1000 genomes]
rs7031407	0.87[EUR][1000 genomes]
rs7031967	0.84[EUR][1000 genomes]
rs7035574	0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7036990	0.91[EUR][1000 genomes]
rs7039968	0.91[EUR][1000 genomes]
rs7040374	0.96[EUR][1000 genomes]
rs7041863	0.81[ASW][hapmap];0.82[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.83[MKK][hapmap];1.00[TSI][hapmap]
rs7043824	0.84[EUR][1000 genomes]
rs7043887	0.87[EUR][1000 genomes]
rs7044749	0.84[EUR][1000 genomes]
rs7045164	0.82[CEU][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap]
rs7048431	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72693587	0.80[EUR][1000 genomes]
rs7350177	0.87[EUR][1000 genomes]
rs7851921	0.87[EUR][1000 genomes]
rs7852138	0.87[EUR][1000 genomes]
rs7853322	0.84[EUR][1000 genomes]
rs7858373	0.91[EUR][1000 genomes]
rs7859139	0.91[EUR][1000 genomes]
rs7864212	0.91[EUR][1000 genomes]
rs7869419	0.82[CEU][hapmap];0.80[EUR][1000 genomes]
rs7873206	0.87[EUR][1000 genomes]
rs898673	0.82[CEU][hapmap];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs922221	0.85[TSI][hapmap];0.87[EUR][1000 genomes]
rs980849	0.87[EUR][1000 genomes]
rs980850	0.80[EUR][1000 genomes]
rs993952	0.91[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv948847	chr9:5712626-6417677	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
2	nsv1031086	chr9:5806949-6630686	Strong transcription Enhancers Weak transcription Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
3	nsv539967	chr9:5806949-6630686	Flanking Active TSS Enhancers Strong transcription Weak transcription Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
4	nsv933124	chr9:6099101-6644738	Weak transcription Genic enhancers Bivalent Enhancer Flanking Active TSS Strong transcription Enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
5	nsv1029000	chr9:6188652-6687205	Enhancers Strong transcription Weak transcription Active TSS Transcr. at gene 5' and 3' Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	68 gene(s)	inside rSNPs	diseases
6	nsv1031459	chr9:6216913-6657192	Active TSS Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
7	nsv948562	chr9:6222553-6684955	Bivalent/Poised TSS Flanking Active TSS Weak transcription Strong transcription Genic enhancers Enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
8	nsv1024324	chr9:6308178-6408875	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
9	nsv1032350	chr9:6328167-6630686	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
10	nsv1019222	chr9:6328242-6402856	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:6342400-6352000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr9:6342800-6343000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin

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