Variant report

Variant	rs16907724
Chromosome Location	chr9:116426224-116426225
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:116420136..116422934-chr9:116424938..116428259,3	K562	blood:
2	chr9:116342032..116344520-chr9:116425170..116426695,2	MCF-7	breast:
3	chr9:116419739..116422322-chr9:116424476..116427451,2	K562	blood:

Variant related genes	Relation type
ENSG00000138835	Chromatin interaction

Extended variants
information (count: 32 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs1077072	1.00[CEU][hapmap];0.89[CHB][hapmap];0.86[JPT][hapmap];0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10817498	0.94[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs10981865	0.91[AFR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10981866	0.92[JPT][hapmap];0.81[YRI][hapmap];0.85[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs10981867	0.98[AFR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10981868	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10981869	0.93[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs10981870	0.93[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs10981871	0.85[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs10981872	0.93[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs10981873	0.93[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs10981874	0.93[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs10981875	0.98[AFR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs16907657	1.00[CEU][hapmap];0.82[JPT][hapmap]
rs2101069	0.94[ASW][hapmap];0.92[JPT][hapmap];0.97[LWK][hapmap];0.91[MKK][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs2622266	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.82[TSI][hapmap];0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs59286569	0.93[EUR][1000 genomes]
rs59638505	0.89[EUR][1000 genomes]
rs7031646	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7031648	0.94[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs7031666	0.94[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs7047639	0.94[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs7047776	0.90[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs7048067	0.93[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs745730	0.93[EUR][1000 genomes]
rs7854061	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs880205	0.94[EUR][1000 genomes];0.85[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	nsv530949	chr9:115821128-116487796	Flanking Active TSS Enhancers Active TSS Weak transcription Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	71 gene(s)	inside rSNPs	diseases
2	nsv430093	chr9:116330446-117325446	Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent/Poised TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	165 gene(s)	inside rSNPs	diseases
3	nsv893749	chr9:116378759-116439749	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
4	nsv466512	chr9:116413751-116446881	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers	Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
5	nsv615220	chr9:116413751-116446881	Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs16907724	TNFSF15	cis	cerebellum	SCAN
rs16907724	ZNF618	cis	cerebellum	SCAN

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:116420800-116427200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr9:116425200-116429800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
3	chr9:116425800-116426600	Bivalent Enhancer	Foreskin Fibroblast Primary Cells skin01	Skin
4	chr9:116425800-116426600	Enhancers	Left Ventricle	heart
5	chr9:116425800-116426600	Enhancers	Psoas Muscle	Psoas
6	chr9:116425800-116426600	Enhancers	Skeletal Muscle Female	skeletal muscle
7	chr9:116425800-116427200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
8	chr9:116426000-116426600	Bivalent Enhancer	IMR90 fetal lung fibroblasts Cell Line	lung
9	chr9:116426000-116427800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
10	chr9:116426200-116427000	Enhancers	Skeletal Muscle Male	skeletal muscle

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