Variant report

Variant	rs13417089
Chromosome Location	chr2:37039362-37039363
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:37038445..37041439-chr2:37044172..37046404,2	MCF-7	breast:
2	chr2:37038416..37040674-chr2:37042878..37045165,2	MCF-7	breast:

Extended variants
information (count: 36 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs10200515	0.98[ASN][1000 genomes]
rs10200548	1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs11124547	0.93[CHB][hapmap];0.88[ASN][1000 genomes]
rs11124548	0.95[ASN][1000 genomes]
rs11892193	1.00[CHB][hapmap];0.88[JPT][hapmap];0.86[ASN][1000 genomes]
rs11901202	0.93[CHB][hapmap];0.86[CHD][hapmap];0.88[JPT][hapmap];0.94[ASN][1000 genomes]
rs11902881	0.86[CHB][hapmap]
rs13003338	0.92[ASN][1000 genomes]
rs13009450	0.92[ASN][1000 genomes]
rs13398292	0.92[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs13417363	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13423835	0.87[EUR][1000 genomes]
rs17019851	0.86[CHB][hapmap]
rs17019854	0.86[CHB][hapmap]
rs2058683	0.93[CHB][hapmap]
rs2072525	0.93[CHB][hapmap];0.83[ASN][1000 genomes]
rs2072527	0.86[CHB][hapmap]
rs4670169	0.93[CHB][hapmap];0.83[ASN][1000 genomes]
rs4670170	0.82[ASN][1000 genomes]
rs4670172	0.92[ASN][1000 genomes]
rs4670620	0.94[ASN][1000 genomes]
rs4670627	0.90[ASN][1000 genomes]
rs56740767	0.85[ASN][1000 genomes]
rs57817021	0.94[ASN][1000 genomes]
rs60390214	0.92[ASN][1000 genomes]
rs72867902	0.92[ASN][1000 genomes]
rs7592382	0.91[CEU][hapmap];1.00[CHB][hapmap];0.94[ASN][1000 genomes]
rs759435	0.80[ASN][1000 genomes]
rs7606098	0.86[CHB][hapmap]
rs929640	0.86[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1004483	chr2:36875235-37356812	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
2	nsv535644	chr2:36875235-37356812	Weak transcription Strong transcription Transcr. at gene 5' and 3' Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
3	nsv428395	chr2:36990348-37300352	Active TSS Strong transcription Weak transcription Enhancers Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
4	nsv2682	chr2:37015550-37060432	Flanking Active TSS Enhancers Weak transcription Strong transcription Bivalent Enhancer ZNF genes & repeats Active TSS	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
5	nsv1011014	chr2:37027819-37095895	Weak transcription Strong transcription Genic enhancers Enhancers Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
6	nsv999465	chr2:37029347-37095895	Strong transcription Enhancers Weak transcription Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs13417089	SULT6B1	cis	cerebellum	SCAN

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:37027400-37044200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
2	chr2:37034600-37042800	Weak transcription	Ovary	ovary
3	chr2:37036000-37042600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr2:37036200-37044200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr2:37037800-37042800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
6	chr2:37038400-37040000	Enhancers	Aorta	Aorta
7	chr2:37039200-37039800	Enhancers	ES-I3 Cell Line	embryonic stem cell
8	chr2:37039200-37039800	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell

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