Variant report

Variant	rs11038608
Chromosome Location	chr11:45691118-45691119
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	chr11:45686097..45689111-chr11:45690987..45693676,3	MCF-7	breast:
2	chr11:45690995..45692950-chr11:45699532..45701438,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000175264	Chromatin interaction

Extended variants
information (count: 30 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs10769157	0.87[EUR][1000 genomes]
rs10769160	0.96[ASN][1000 genomes]
rs1078720	0.91[ASN][1000 genomes]
rs11038597	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12804655	0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1348964	0.87[EUR][1000 genomes]
rs1348965	0.87[EUR][1000 genomes]
rs1447569	0.96[CEU][hapmap];0.86[JPT][hapmap];0.82[MEX][hapmap];0.87[TSI][hapmap];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs34264431	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs36106594	0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4148893	0.96[ASN][1000 genomes]
rs4148894	0.96[ASN][1000 genomes]
rs4148897	0.87[ASW][hapmap];0.96[CEU][hapmap];0.86[CHB][hapmap];0.92[CHD][hapmap];0.93[JPT][hapmap];0.91[MEX][hapmap];0.92[MKK][hapmap];0.87[TSI][hapmap];0.86[YRI][hapmap];0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4148900	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4148904	0.96[CEU][hapmap];0.93[JPT][hapmap];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4472909	0.89[AFR][1000 genomes];0.87[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs45486999	0.85[AFR][1000 genomes];0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs45604433	0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4755332	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4756008	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs55681357	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7121696	0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs750398	0.91[ASN][1000 genomes]
rs895729	1.00[CHB][hapmap];1.00[CHD][hapmap];0.86[GIH][hapmap];0.93[JPT][hapmap];0.96[ASN][1000 genomes]
rs895734	1.00[CHB][hapmap];1.00[CHD][hapmap];0.82[GIH][hapmap];0.93[JPT][hapmap];0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv897311	chr11:45663568-45691118	Bivalent Enhancer Enhancers Active TSS Weak transcription Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv897312	chr11:45663568-45699134	Enhancers Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Bivalent/Poised TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv897313	chr11:45670395-45699134	Flanking Active TSS Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Bivalent/Poised TSS Active TSS Weak transcription Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv467870	chr11:45684557-45757401	Bivalent Enhancer Enhancers Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	7 gene(s)	inside rSNPs	diseases
5	nsv554199	chr11:45684557-45757401	Active TSS Flanking Active TSS Bivalent Enhancer Enhancers Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	7 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11038608	CHST1	cis	parietal	SCAN

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:45687200-45699000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr11:45687600-45692000	Weak transcription	Pancreas	Pancrea
3	chr11:45687800-45692400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
4	chr11:45688000-45700600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr11:45688800-45692400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
6	chr11:45688800-45692800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
7	chr11:45688800-45692800	Weak transcription	Brain Anterior Caudate	brain
8	chr11:45688800-45692800	Weak transcription	Brain Substantia Nigra	brain
9	chr11:45688800-45693200	Weak transcription	Brain Angular Gyrus	brain
10	chr11:45688800-45693200	Weak transcription	Brain Inferior Temporal Lobe	brain
11	chr11:45689000-45692200	Weak transcription	Brain Hippocampus Middle	brain
12	chr11:45689000-45693200	Weak transcription	Brain Cingulate Gyrus	brain
13	chr11:45691000-45692200	Enhancers	Fetal Muscle Leg	muscle

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