Variant report

Variant	rs906659
Chromosome Location	chr6:54199582-54199583
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 14 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs12663018	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12663455	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1396382	0.82[CEU][hapmap];0.94[YRI][hapmap];0.81[EUR][1000 genomes]
rs16885213	0.91[CEU][hapmap];0.93[YRI][hapmap];0.81[EUR][1000 genomes]
rs3777654	0.82[CEU][hapmap]
rs41276062	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62412584	0.81[EUR][1000 genomes]
rs62412586	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62412587	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62412588	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62412589	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1067663	chr6:53796341-54449718	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
2	nsv529158	chr6:53796341-54449718	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
3	nsv885888	chr6:54132353-54266032	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:54181000-54200400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr6:54192800-54200200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
3	chr6:54193000-54200200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
4	chr6:54198200-54200400	Weak transcription	HSMMtube	muscle
5	chr6:54198800-54201000	Enhancers	HUES48 Cell Line	embryonic stem cell
6	chr6:54198800-54202200	Enhancers	HUVEC	blood vessel
7	chr6:54199000-54200000	Weak transcription	NH-A	brain
8	chr6:54199200-54199600	Enhancers	iPS-20b Cell Line	embryonic stem cell
9	chr6:54199200-54200200	Weak transcription	HMEC	breast
10	chr6:54199200-54200200	Weak transcription	NHEK	skin
11	chr6:54199200-54200800	Enhancers	iPS-18 Cell Line	embryonic stem cell

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Input of quick search could be:

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

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