Variant report

Variant	rs3892585
Chromosome Location	chr9:96090182-96090183
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:96077920..96081969-chr9:96088164..96091770,4	MCF-7	breast:
2	chr9:96087711..96090467-chr9:96211671..96213494,2	K562	blood:
3	chr9:96089421..96091498-chr9:96337529..96339573,2	MCF-7	breast:
4	chr9:96087344..96090243-chr9:96221738..96224312,2	MCF-7	breast:
5	chr9:96086511..96088058-chr9:96089465..96091838,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000197724	Chromatin interaction
ENSG00000188938	Chromatin interaction

Extended variants
information (count: 14 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs10512221	1.00[CHB][hapmap];0.82[JPT][hapmap];0.93[YRI][hapmap];1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10992707	1.00[CHB][hapmap];0.82[JPT][hapmap];0.89[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12003673	0.86[CHB][hapmap]
rs13289948	0.84[CHB][hapmap]
rs3858081	0.84[CHB][hapmap];0.85[YRI][hapmap];0.89[AFR][1000 genomes]
rs4534181	0.86[CHB][hapmap];0.86[YRI][hapmap];0.88[AFR][1000 genomes];0.80[ASN][1000 genomes]
rs4633120	1.00[CHB][hapmap];0.82[JPT][hapmap];0.93[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7875155	0.92[CHB][hapmap];0.91[AMR][1000 genomes]

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	nsv893576	chr9:95789960-96158277	Active TSS Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
2	nsv893580	chr9:95855100-96099377	Flanking Active TSS Flanking Bivalent TSS/Enh Enhancers Active TSS Weak transcription Genic enhancers Strong transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
3	nsv430082	chr9:95905745-96095045	Genic enhancers Enhancers Active TSS Weak transcription Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
4	nsv893582	chr9:95963114-96116937	Bivalent Enhancer Bivalent/Poised TSS Weak transcription Enhancers Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
5	nsv893583	chr9:95996573-96091688	Weak transcription Enhancers ZNF genes & repeats Strong transcription Genic enhancers Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
6	nsv893584	chr9:96002983-96116937	Enhancers Bivalent Enhancer Weak transcription Bivalent/Poised TSS Strong transcription Flanking Active TSS Genic enhancers Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:96068400-96100400	Weak transcription	Brain Inferior Temporal Lobe	brain
2	chr9:96079600-96094400	Weak transcription	Stomach Mucosa	stomach
3	chr9:96080400-96090400	Weak transcription	Gastric	stomach
4	chr9:96081000-96100600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr9:96083200-96100400	Weak transcription	Fetal Stomach	stomach
6	chr9:96083400-96094400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
7	chr9:96083800-96090400	Weak transcription	Stomach Smooth Muscle	stomach
8	chr9:96083800-96090800	Weak transcription	Brain Germinal Matrix	brain
9	chr9:96083800-96094400	Weak transcription	Rectal Mucosa Donor 29	rectum
10	chr9:96084600-96092400	Weak transcription	Fetal Intestine Small	intestine
11	chr9:96087000-96093400	Strong transcription	HUES6 Cell Line	embryonic stem cell
12	chr9:96089000-96091800	Weak transcription	Rectal Mucosa Donor 31	rectum
13	chr9:96089000-96093200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
14	chr9:96089000-96093200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
15	chr9:96089000-96093200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
16	chr9:96089000-96093400	Weak transcription	H1 Cell Line	embryonic stem cell
17	chr9:96089200-96091600	Weak transcription	A549	lung
18	chr9:96089200-96099400	Weak transcription	Fetal Brain Female	brain
19	chr9:96089400-96091400	Weak transcription	HUES48 Cell Line	embryonic stem cell
20	chr9:96089400-96093400	Weak transcription	H9 Cell Line	embryonic stem cell
21	chr9:96089600-96092000	Weak transcription	HUES64 Cell Line	embryonic stem cell
22	chr9:96089800-96091600	Weak transcription	HepG2	liver

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