Variant report

Variant	rs11169453
Chromosome Location	chr12:50885840-50885841
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr12:50884317..50886890-chr12:51151312..51154186,3	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-DIP2B-2	chr12:50885633-50886228	l_644_chr12:50885632-50886694_testes

Extended variants
information (count: 59 )
Associated
traits (count: 6 )

rSNPs within LD-proxies of this variant (count:58)

rs_ID	r²[population]
rs10747583	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10783375	0.90[ASN][1000 genomes]
rs10876045	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10876055	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.84[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10876059	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10876066	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10876069	0.81[AMR][1000 genomes]
rs10876074	0.84[AMR][1000 genomes]
rs11169470	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11169484	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11169486	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11169490	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11169492	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11169506	1.00[CEU][hapmap];0.87[CHB][hapmap];0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs11169520	0.95[CEU][hapmap]
rs11169523	0.85[AMR][1000 genomes]
rs11169524	0.86[AMR][1000 genomes]
rs12307178	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12372538	0.85[AFR][1000 genomes];0.99[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12425362	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12427378	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.86[AMR][1000 genomes]
rs12582683	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12814717	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12818741	1.00[CEU][hapmap];0.88[CHB][hapmap];0.84[AMR][1000 genomes]
rs12825915	0.86[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1316442	0.81[AMR][1000 genomes]
rs1316607	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes]
rs13378012	1.00[CEU][hapmap];0.88[CHB][hapmap];0.81[YRI][hapmap];0.82[AMR][1000 genomes]
rs1967576	0.84[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs2090852	0.86[AMR][1000 genomes]
rs2139930	0.86[AMR][1000 genomes]
rs2684908	0.94[CHB][hapmap];1.00[JPT][hapmap]
rs34553264	0.86[AMR][1000 genomes]
rs34682944	0.83[AMR][1000 genomes]
rs3742062	0.83[AMR][1000 genomes]
rs3935138	0.94[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs3935870	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4617661	0.99[ASN][1000 genomes]
rs4768847	0.98[ASN][1000 genomes]
rs4768903	0.92[CEU][hapmap]
rs61699126	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs61926278	0.81[AMR][1000 genomes]
rs6580756	0.98[ASN][1000 genomes]
rs67092086	0.94[ASN][1000 genomes]
rs7133160	0.84[AMR][1000 genomes]
rs7133687	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7137845	1.00[CEU][hapmap];0.88[CHB][hapmap];0.81[YRI][hapmap];0.84[AMR][1000 genomes]
rs7298661	0.84[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs7298665	1.00[CEU][hapmap];0.81[YRI][hapmap];0.84[AMR][1000 genomes]
rs7302435	0.84[AMR][1000 genomes]
rs7309964	0.96[CEU][hapmap]
rs7316864	0.93[ASN][1000 genomes]
rs7397999	0.93[ASN][1000 genomes]
rs7487429	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7955736	0.96[CEU][hapmap]
rs7965652	0.84[AMR][1000 genomes]
rs876080	0.83[CHB][hapmap]
rs9788075	0.84[AMR][1000 genomes];0.81[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv1820967	chr12:50856613-51002088	Flanking Active TSS Weak transcription Enhancers Strong transcription ZNF genes & repeats Active TSS Genic enhancers 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	7 gene(s)	inside rSNPs	diseases

mRNA abundance (count:6)

SNP	Gene	Cis/trans	Tissue	Source
rs11169453	DIP2B	cis	multi-tissue	Pritchard
rs11169453	CERS5	cis	Nerve Tibial	GTEx
rs11169453	ATF1	cis	Artery Tibial	GTEx
rs11169453	DIP2B	Cis_1M	lymphoblastoid	RTeQTL
rs11169453	KIAA1463	cis	multi-tissue	Pritchard
rs11169453	DIP2B	cis	Lymphoblastoid	GTEx

Chromatin state (count:0 , 50 per page) page:

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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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