Variant report

Variant	rs11025018
Chromosome Location	chr11:19136906-19136907
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr11:19136750-19136950	MCF10A-Er-Src	breast:	n/a	n/a

Variant related genes	Relation type
ZDHHC13	TF binding region

Extended variants
information (count: 27 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs1039512	0.83[AMR][1000 genomes]
rs10833057	0.81[AMR][1000 genomes]
rs10833058	0.83[AMR][1000 genomes]
rs10833059	0.88[AMR][1000 genomes]
rs10833061	0.83[AMR][1000 genomes]
rs10833062	0.85[TSI][hapmap]
rs10833063	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11024997	0.88[AMR][1000 genomes]
rs11025013	0.89[YRI][hapmap];0.88[AMR][1000 genomes]
rs11025014	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11025016	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11025017	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11025020	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11601935	0.83[AMR][1000 genomes]
rs11601953	0.97[EUR][1000 genomes]
rs11606222	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11608243	0.93[CEU][hapmap];1.00[GIH][hapmap];0.93[MEX][hapmap];0.84[MKK][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs16936167	1.00[ASW][hapmap];0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.92[LWK][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.95[YRI][hapmap];0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2089051	0.88[AMR][1000 genomes]
rs4756987	0.81[AMR][1000 genomes]
rs4756989	0.81[TSI][hapmap];0.86[YRI][hapmap];0.86[AMR][1000 genomes]
rs4757754	0.95[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4757755	0.96[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs68006237	1.00[EUR][1000 genomes]
rs7123033	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[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	nsv1040805	chr11:19037871-19892803	Enhancers Bivalent Enhancer Weak transcription Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
2	nsv540957	chr11:19037871-19892803	Active TSS Weak transcription Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	25 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs11025018	NAV2	cis	cerebellum	SCAN
rs11025018	ZDHHC13	cis	parietal	SCAN

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:19125000-19138600	Weak transcription	Gastric	stomach
2	chr11:19131600-19138000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
3	chr11:19131600-19138000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
4	chr11:19132000-19138000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
5	chr11:19132200-19138000	Weak transcription	Skeletal Muscle Female	skeletal muscle
6	chr11:19132400-19137800	Weak transcription	Brain Anterior Caudate	brain
7	chr11:19132800-19138000	Weak transcription	Pancreas	Pancrea
8	chr11:19133400-19137800	Weak transcription	Primary neutrophils fromperipheralblood	blood
9	chr11:19133400-19138000	Weak transcription	Fetal Brain Female	brain
10	chr11:19133400-19138000	Weak transcription	Fetal Heart	heart
11	chr11:19133600-19138000	Weak transcription	Rectal Mucosa Donor 31	rectum
12	chr11:19134200-19138200	Weak transcription	Pancreatic Islets	Pancreatic Islet

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