Variant report

Variant	rs1009840
Chromosome Location	chr6:134546685-134546686
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs13203172	0.84[CHD][hapmap];0.94[JPT][hapmap];0.82[TSI][hapmap];0.80[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs1621042	0.88[CHD][hapmap];0.94[JPT][hapmap];0.83[MEX][hapmap];0.85[TSI][hapmap];0.84[ASN][1000 genomes]
rs17053580	0.85[CHD][hapmap];0.82[JPT][hapmap]
rs17063535	0.81[JPT][hapmap]
rs17063563	0.84[CHB][hapmap];0.82[JPT][hapmap]
rs1763501	0.83[ASN][1000 genomes]
rs1763502	0.81[CEU][hapmap];0.94[JPT][hapmap];0.86[AMR][1000 genomes];0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1763509	0.87[JPT][hapmap]
rs1763510	0.84[CHB][hapmap];0.94[JPT][hapmap]
rs4895397	0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs4896026	0.88[ASN][1000 genomes]
rs4896028	0.88[CHD][hapmap];0.94[JPT][hapmap];0.85[TSI][hapmap];0.90[ASN][1000 genomes]
rs6937942	0.82[ASN][1000 genomes]
rs72972282	0.82[ASN][1000 genomes]
rs734738	0.89[JPT][hapmap]
rs744196	0.89[JPT][hapmap]
rs9493857	0.94[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv492292	chr6:134464255-135028540	Weak transcription Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	79 gene(s)	inside rSNPs	diseases
2	nsv1026369	chr6:134468470-135122264	Active TSS Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	81 gene(s)	inside rSNPs	diseases
3	nsv538444	chr6:134468470-135122264	Weak transcription Enhancers Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	81 gene(s)	inside rSNPs	diseases
4	nsv1018677	chr6:134512542-134638259	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Strong transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
5	nsv538445	chr6:134512542-134638259	Enhancers Genic enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
6	nsv1023931	chr6:134512542-134668702	Weak transcription Bivalent/Poised TSS Flanking Active TSS Active TSS Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
7	nsv538446	chr6:134512542-134668702	Enhancers Flanking Active TSS Active TSS Weak transcription Bivalent Enhancer Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:134532800-134551200	Weak transcription	Brain Inferior Temporal Lobe	brain
2	chr6:134536400-134551600	Weak transcription	Primary T cells from cord blood	blood
3	chr6:134539400-134547000	Weak transcription	Monocytes-CD14+_RO01746	blood
4	chr6:134539400-134549600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
5	chr6:134545200-134551200	Weak transcription	Adipose Nuclei	Adipose
6	chr6:134545600-134550800	Weak transcription	Brain Anterior Caudate	brain
7	chr6:134545600-134550800	Weak transcription	Brain Hippocampus Middle	brain
8	chr6:134545800-134554600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
9	chr6:134546400-134550400	Enhancers	Primary neutrophils fromperipheralblood	blood
10	chr6:134546600-134547600	Enhancers	Primary monocytes fromperipheralblood	blood

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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