Variant report

Variant	rs2518306
Chromosome Location	chr6:102160539-102160540
allele	G/T
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:19)

rs_ID	r²[population]
rs1415482	0.89[CEU][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.83[MEX][hapmap];1.00[TSI][hapmap];0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1856134	1.00[CEU][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2248660	0.84[ASW][hapmap];1.00[CEU][hapmap];0.82[JPT][hapmap];0.87[LWK][hapmap];1.00[MEX][hapmap];0.94[TSI][hapmap];0.88[YRI][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2248893	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2248984	0.84[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2251726	0.81[CEU][hapmap];0.88[YRI][hapmap]
rs2254676	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2518296	1.00[CEU][hapmap];0.82[CHB][hapmap];0.92[CHD][hapmap];0.91[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2518297	1.00[CEU][hapmap];0.91[JPT][hapmap];0.88[YRI][hapmap]
rs2518298	0.90[CEU][hapmap];0.82[JPT][hapmap];1.00[TSI][hapmap]
rs2764234	1.00[CEU][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2852564	0.90[CEU][hapmap];0.90[JPT][hapmap];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2852566	1.00[CEU][hapmap];0.91[JPT][hapmap];0.93[YRI][hapmap]
rs2852569	0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6942125	0.81[CEU][hapmap];0.91[JPT][hapmap]
rs7745860	1.00[CEU][hapmap];0.93[YRI][hapmap];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9399725	1.00[CEU][hapmap];0.90[JPT][hapmap];0.92[YRI][hapmap];0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs949395	1.00[CEU][hapmap];0.92[CHD][hapmap];0.91[JPT][hapmap];1.00[TSI][hapmap]
rs9498669	0.83[TSI][hapmap]

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	esv3384771	chr6:101996253-102283808	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
2	nsv1032499	chr6:102069885-102720998	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv463993	chr6:102084491-102165329	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	nsv604317	chr6:102084491-102165329	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	nsv1016167	chr6:102152010-102198914	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:102155200-102170600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr6:102158200-102161400	Weak transcription	HUES64 Cell Line	embryonic stem cell
3	chr6:102158200-102163200	Weak transcription	H9 Cell Line	embryonic stem cell
4	chr6:102158200-102164400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr6:102159000-102160800	Weak transcription	HUES48 Cell Line	embryonic stem cell
6	chr6:102159400-102160800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
7	chr6:102159600-102162000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
8	chr6:102159800-102160800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
9	chr6:102159800-102160800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--

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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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