Variant report

Variant	rs9890405
Chromosome Location	chr17:60184110-60184111
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr17:60183378..60185316-chr17:60186593..60188415,2	K562	blood:
2	chr17:60182405..60184267-chr17:60241303..60242946,2	MCF-7	breast:
3	chr17:60178480..60180741-chr17:60182738..60185657,2	MCF-7	breast:
4	chr17:59913859..59915810-chr17:60183399..60185979,2	MCF-7	breast:
5	chr17:60141575..60143136-chr17:60183826..60185474,2	MCF-7	breast:
6	chr17:60140586..60145534-chr17:60180538..60185303,6	MCF-7	breast:

Variant related genes	Relation type
ENSG00000108510	Chromatin interaction

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs12103770	1.00[EUR][1000 genomes]
rs16945866	0.95[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs28670441	0.80[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs4968411	1.00[EUR][1000 genomes]
rs4968482	1.00[EUR][1000 genomes]
rs7212697	1.00[EUR][1000 genomes]
rs73327634	1.00[EUR][1000 genomes]
rs73338410	1.00[EUR][1000 genomes]
rs73338442	1.00[EUR][1000 genomes]
rs8074607	1.00[EUR][1000 genomes]
rs9894102	1.00[EUR][1000 genomes]
rs9897373	1.00[EUR][1000 genomes]
rs9897713	0.96[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs9898702	1.00[EUR][1000 genomes]
rs9899173	0.84[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs9900110	0.84[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs9905100	1.00[EUR][1000 genomes]
rs9907962	0.82[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs9913415	1.00[EUR][1000 genomes]
rs9916871	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1062816	chr17:60074670-60470465	Strong transcription Enhancers Weak transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	42 gene(s)	inside rSNPs	diseases
2	esv2753884	chr17:60077852-60190630	Strong transcription Active TSS Weak transcription Transcr. at gene 5' and 3' Enhancers Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
3	esv2755037	chr17:60086508-60386211	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	35 gene(s)	inside rSNPs	diseases
4	esv3415630	chr17:60124819-60401635	Enhancers Genic enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	34 gene(s)	inside rSNPs	diseases
5	nsv833507	chr17:60174659-60369541	Enhancers Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
6	nsv469887	chr17:60176679-60381899	Enhancers Weak transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
7	nsv482579	chr17:60176679-60381899	Weak transcription Enhancers ZNF genes & repeats Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:60178200-60186800	Weak transcription	Rectal Mucosa Donor 29	rectum
2	chr17:60179400-60186600	Weak transcription	Rectal Mucosa Donor 31	rectum
3	chr17:60182200-60184200	Enhancers	K562	blood
4	chr17:60182400-60184200	Enhancers	Fetal Intestine Large	intestine
5	chr17:60182400-60184200	Enhancers	HepG2	liver
6	chr17:60182400-60184400	Enhancers	Fetal Intestine Small	intestine
7	chr17:60182600-60184800	Enhancers	Liver	Liver
8	chr17:60183400-60184600	Enhancers	Duodenum Mucosa	Duodenum
9	chr17:60184000-60184200	Enhancers	HUES6 Cell Line	embryonic stem cell

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