Variant report

Variant	rs13266707
Chromosome Location	chr8:61383871-61383872
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	chr8:61383219..61385610-chr8:61591887..61594135,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000171316	Chromatin interaction

Extended variants
information (count: 84 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:82)

rs_ID	r²[population]
rs10091703	0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10100740	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10101576	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10101714	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10103438	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10109278	0.90[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];1.00[JPT][hapmap];0.84[MEX][hapmap];0.94[TSI][hapmap];0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10110436	0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1014860	0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10435602	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10504311	0.94[CHB][hapmap];0.94[CHD][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs10957135	0.94[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs10957136	0.80[AFR][1000 genomes];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10957137	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10957138	0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10957140	0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10957141	0.90[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];1.00[JPT][hapmap];0.84[MEX][hapmap];0.94[TSI][hapmap];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10957143	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10957146	0.90[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];1.00[JPT][hapmap];0.84[MEX][hapmap];0.94[TSI][hapmap];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10957149	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11774500	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11775407	0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11778529	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11778708	0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11778772	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11778888	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11782178	0.90[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];1.00[JPT][hapmap];0.84[MEX][hapmap];0.94[TSI][hapmap];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11782463	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11784284	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11786146	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11988528	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12678694	0.90[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];1.00[JPT][hapmap];0.84[MEX][hapmap];0.94[TSI][hapmap];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12680436	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12681841	0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs13267765	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs13267828	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13269925	0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1480342	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2326556	0.94[ASW][hapmap];0.90[CEU][hapmap];0.94[CHB][hapmap];0.94[CHD][hapmap];1.00[JPT][hapmap];0.92[MEX][hapmap];0.86[MKK][hapmap];0.97[TSI][hapmap];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2326557	0.90[CEU][hapmap];0.94[CHB][hapmap];0.94[CHD][hapmap];1.00[JPT][hapmap];0.92[MEX][hapmap];0.84[MKK][hapmap];0.97[TSI][hapmap];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2625445	0.80[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs28405386	0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs28495747	0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs28542403	0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs28678079	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2875966	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs34234629	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs34523017	0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs34775344	0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs35837434	0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs35853087	0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs592014	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs602724	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs603239	0.90[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];1.00[JPT][hapmap];0.84[MEX][hapmap];0.94[TSI][hapmap];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs610455	1.00[CHB][hapmap];0.94[CHD][hapmap];1.00[JPT][hapmap];0.84[MEX][hapmap];0.86[TSI][hapmap];0.88[ASN][1000 genomes]
rs624407	0.86[ASN][1000 genomes]
rs6471883	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6471884	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs649634	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[MEX][hapmap];0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs664796	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs66983460	0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs671275	0.84[CEU][hapmap];0.84[CHB][hapmap];0.82[CHD][hapmap];1.00[JPT][hapmap];0.91[TSI][hapmap]
rs677467	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs684573	0.90[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];1.00[JPT][hapmap];0.97[TSI][hapmap];0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6987523	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6991529	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6993237	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6995397	0.95[CEU][hapmap];0.86[EUR][1000 genomes]
rs6996344	0.90[CEU][hapmap];1.00[CHB][hapmap];0.87[CHD][hapmap];1.00[JPT][hapmap];0.94[TSI][hapmap];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6998294	0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7017556	0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7357376	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7462738	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7812421	0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7820349	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7822391	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7826226	0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7832664	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7832964	1.00[CHB][hapmap];0.94[JPT][hapmap];0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7839516	0.80[YRI][hapmap]
rs7842105	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9437	0.90[CEU][hapmap];1.00[CHB][hapmap];0.85[CHD][hapmap];1.00[JPT][hapmap];0.94[TSI][hapmap];0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9643524	0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv917756	chr8:60942299-61862796	Enhancers Weak transcription Active TSS Genic enhancers Bivalent/Poised TSS Strong transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	74 gene(s)	inside rSNPs	diseases
2	nsv971314	chr8:61359401-61436209	Active TSS Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs13266707	RAB2	cis	uninvolved skin	skin_eQTL
rs13266707	RAB2A	Cis_1M	lymphoblastoid	RTeQTL
rs13266707	RAB2	cis	normal skin	skin_eQTL
rs13266707	RAB2	cis	lesional skin	skin_eQTL

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:61380400-61385400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr8:61382000-61384400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

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