Variant report

Variant	rs8033476
Chromosome Location	chr15:49952940-49952941
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:62607720..62610476-chr15:49951161..49953011,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000133316	Chromatin interaction

Extended variants
information (count: 77 )
Associated
traits (count: 5 )

rSNPs within LD-proxies of this variant (count:74)

rs_ID	r²[population]
rs10152754	1.00[YRI][hapmap];0.95[AFR][1000 genomes]
rs1048348	0.89[ASW][hapmap];1.00[LWK][hapmap];0.81[MKK][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes]
rs10851479	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs11070699	0.81[CEU][hapmap];0.82[JPT][hapmap]
rs11070706	1.00[CHB][hapmap];0.96[CHD][hapmap];1.00[JPT][hapmap]
rs11070708	0.81[AFR][1000 genomes]
rs11070713	0.94[AFR][1000 genomes]
rs11637582	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11852336	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs11853248	0.85[ASN][1000 genomes]
rs11854671	0.84[ASN][1000 genomes]
rs11857320	0.89[ASW][hapmap];1.00[LWK][hapmap];0.80[MKK][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes]
rs11858411	1.00[CHB][hapmap];0.96[CHD][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs12050614	1.00[CHB][hapmap];0.96[CHD][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs12050624	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12148764	1.00[CHB][hapmap];0.96[CHD][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs12232355	1.00[CHB][hapmap];0.96[CHD][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs12591317	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs12591659	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs12593151	0.86[ASN][1000 genomes]
rs12595692	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs12901680	0.80[ASN][1000 genomes]
rs12902960	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs12906134	0.96[ASN][1000 genomes]
rs12906972	0.89[ASN][1000 genomes]
rs12907661	0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12907918	0.87[ASN][1000 genomes]
rs12907944	0.89[ASN][1000 genomes]
rs12908624	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs12908635	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs12912703	1.00[CHB][hapmap];0.86[JPT][hapmap];0.87[ASN][1000 genomes]
rs1395901	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs1395903	0.89[ASN][1000 genomes]
rs17402115	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs17479589	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs1874616	0.89[CEU][hapmap];0.82[JPT][hapmap];0.87[MEX][hapmap];0.86[TSI][hapmap]
rs1911612	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs1948975	0.89[ASN][1000 genomes]
rs1976551	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2202714	0.89[CEU][hapmap];0.82[JPT][hapmap]
rs2413956	0.89[ASN][1000 genomes]
rs28562087	0.95[AFR][1000 genomes]
rs2899434	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs2899448	0.94[AFR][1000 genomes]
rs34002493	0.86[ASN][1000 genomes]
rs34146550	0.82[ASN][1000 genomes]
rs34246470	0.89[ASN][1000 genomes]
rs34414487	0.89[ASN][1000 genomes]
rs34694913	0.89[ASN][1000 genomes]
rs34941109	0.89[ASN][1000 genomes]
rs35698479	0.86[ASN][1000 genomes]
rs4436732	0.86[ASN][1000 genomes]
rs4480740	1.00[CHB][hapmap];0.96[CHD][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs4547278	0.86[ASN][1000 genomes]
rs4775816	0.89[ASN][1000 genomes]
rs55904469	0.89[ASN][1000 genomes]
rs62009977	0.86[ASN][1000 genomes]
rs62021589	0.87[ASN][1000 genomes]
rs62022665	0.87[ASN][1000 genomes]
rs62022667	0.89[ASN][1000 genomes]
rs6493372	1.00[CHB][hapmap];0.96[CHD][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs7162741	0.87[ASN][1000 genomes]
rs7163740	0.81[AFR][1000 genomes]
rs7172906	0.86[ASN][1000 genomes]
rs7174135	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs7176306	0.83[ASW][hapmap];0.91[LWK][hapmap];0.88[YRI][hapmap];0.81[AFR][1000 genomes]
rs731051	1.00[YRI][hapmap];0.97[AFR][1000 genomes]
rs753857	0.81[CEU][hapmap];0.82[JPT][hapmap];0.87[MEX][hapmap];0.84[TSI][hapmap]
rs8027730	0.85[YRI][hapmap]
rs8032688	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs925103	0.89[AFR][1000 genomes]
rs925104	1.00[CHB][hapmap];0.90[JPT][hapmap];0.89[ASN][1000 genomes]
rs962710	0.83[AFR][1000 genomes]
rs9635335	0.97[AFR][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	nsv431388	chr15:49835663-49997483	Flanking Active TSS Strong transcription ZNF genes & repeats Weak transcription Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
2	nsv1044277	chr15:49921547-50702386	Enhancers Active TSS Weak transcription Strong transcription Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	107 gene(s)	inside rSNPs	diseases
3	nsv542380	chr15:49921547-50702386	Enhancers Strong transcription Weak transcription Genic enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	107 gene(s)	inside rSNPs	diseases

mRNA abundance (count:5)

SNP	Gene	Cis/trans	Tissue	Source
rs8033476	MAP1A	cis	cerebellum	SCAN
rs8033476	DTWD1	cis	cerebellum	SCAN
rs8033476	DTWD1	cis	lymphoblastoid	seeQTL
rs8033476	AP4E1	cis	cerebellum	SCAN
rs8033476	CTDSPL2	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:49952600-49953200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung

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