Variant report

Variant	rs13391566
Chromosome Location	chr2:20300186-20300187
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr2:20146475..20148422-chr2:20299562..20301684,2	K562	blood:
2	chr2:20299695..20307724-chr2:20421846..20426859,15	MCF-7	breast:
3	chr2:20292117..20294039-chr2:20297489..20300259,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000115884	Chromatin interaction

Extended variants
information (count: 39 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs10169811	0.95[CEU][hapmap];0.88[EUR][1000 genomes]
rs10171384	0.95[CEU][hapmap];0.88[EUR][1000 genomes]
rs10195803	0.95[CEU][hapmap];0.88[EUR][1000 genomes]
rs10199614	0.95[CEU][hapmap];0.88[EUR][1000 genomes]
rs10207632	0.88[EUR][1000 genomes]
rs10208355	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1028054	0.95[CEU][hapmap];0.89[EUR][1000 genomes]
rs1028055	0.95[CEU][hapmap];0.89[EUR][1000 genomes]
rs11096639	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11677734	0.87[CEU][hapmap]
rs11679737	0.81[CEU][hapmap]
rs11685788	0.95[CEU][hapmap];0.86[CHB][hapmap];0.95[JPT][hapmap];0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11689490	0.91[CEU][hapmap]
rs11690530	0.83[CEU][hapmap]
rs11692546	0.83[CEU][hapmap]
rs11900576	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12998930	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13005386	0.86[CEU][hapmap]
rs34481015	0.80[EUR][1000 genomes]
rs55971461	0.89[EUR][1000 genomes]
rs6531203	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6531204	0.87[CEU][hapmap]
rs6531205	0.87[CEU][hapmap]
rs6531206	0.95[CEU][hapmap];0.89[EUR][1000 genomes]
rs6531207	0.95[CEU][hapmap];0.87[EUR][1000 genomes]
rs66598678	0.88[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs6708655	0.87[CEU][hapmap]
rs6709349	0.91[CEU][hapmap]
rs6719494	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6749952	0.88[EUR][1000 genomes]
rs7556745	0.94[CEU][hapmap];0.88[EUR][1000 genomes]
rs7558628	0.95[CEU][hapmap];0.89[EUR][1000 genomes]
rs7561381	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7572608	0.95[CEU][hapmap];0.89[EUR][1000 genomes]
rs7582437	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7583420	0.95[CEU][hapmap];0.89[EUR][1000 genomes]
rs7609013	0.95[CEU][hapmap];0.88[EUR][1000 genomes]
rs878983	0.85[CEU][hapmap]
rs907864	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs13391566	AC098828.2	cis	Skin Sun Exposed Lower leg	GTEx

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:20292000-20300400	Weak transcription	HUVEC	blood vessel
2	chr2:20293600-20304200	Weak transcription	Stomach Mucosa	stomach
3	chr2:20294000-20304400	Weak transcription	Pancreas	Pancrea
4	chr2:20294400-20300200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
5	chr2:20298000-20303000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
6	chr2:20298400-20307800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr2:20299600-20301000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
8	chr2:20299600-20301800	Enhancers	Placenta	Placenta
9	chr2:20299800-20301400	Enhancers	HepG2	liver
10	chr2:20300000-20303600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell

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