Variant report

Variant	rs61093440
Chromosome Location	chr9:98577972-98577973
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:98563811..98565847-chr9:98577723..98580063,2	MCF-7	breast:
2	chr9:98576423..98578313-chr9:98583202..98584976,2	K562	blood:
3	chr9:98571684..98573454-chr9:98577064..98579753,2	MCF-7	breast:
4	chr9:98577023..98579790-chr9:98637878..98639433,2	K562	blood:

Variant related genes	Relation type
ENSG00000175611	Chromatin interaction
ENSG00000182150	Chromatin interaction

Extended variants
information (count: 45 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs12003772	0.88[ASN][1000 genomes]
rs12551596	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12551880	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12554182	1.00[AMR][1000 genomes];0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12555687	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1413178	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16910333	0.97[ASN][1000 genomes]
rs16910342	0.97[ASN][1000 genomes]
rs16910409	0.90[ASN][1000 genomes]
rs16910427	0.90[ASN][1000 genomes]
rs17303073	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs17303324	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2297009	0.91[ASN][1000 genomes]
rs2423	0.90[ASN][1000 genomes]
rs3739755	0.95[ASN][1000 genomes]
rs3739756	0.88[ASN][1000 genomes]
rs4742763	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4742769	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4742801	0.91[ASN][1000 genomes]
rs4743327	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4743351	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4743383	0.97[ASN][1000 genomes]
rs4743460	0.88[ASN][1000 genomes]
rs4743469	0.81[ASN][1000 genomes]
rs55651016	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs55770584	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs55781050	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55797980	0.88[ASN][1000 genomes]
rs55881510	0.91[ASN][1000 genomes]
rs56063686	0.95[ASN][1000 genomes]
rs56070531	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs56110216	0.91[ASN][1000 genomes]
rs56125887	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56372801	0.88[ASN][1000 genomes]
rs56403401	0.91[ASN][1000 genomes]
rs57096664	0.97[ASN][1000 genomes]
rs59046245	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59189545	0.95[ASN][1000 genomes]
rs61036807	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9721742	0.95[AMR][1000 genomes];0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9792431	0.88[ASN][1000 genomes]
rs9792684	0.88[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv893598	chr9:98508628-98645674	Weak transcription Active TSS Enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	46 gene(s)	inside rSNPs	diseases
2	nsv482884	chr9:98530027-98691937	Weak transcription ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Enhancers Strong transcription Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases
3	nsv893599	chr9:98542410-98991254	Bivalent Enhancer Enhancers Strong transcription Weak transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	52 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:41 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:98548400-98578400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr9:98570400-98580800	Weak transcription	Fetal Intestine Small	intestine
3	chr9:98570400-98585800	Weak transcription	Sigmoid Colon	Sigmoid Colon
4	chr9:98570400-98589200	Weak transcription	Left Ventricle	heart
5	chr9:98570400-98589200	Weak transcription	Right Ventricle	heart
6	chr9:98570400-98593200	Weak transcription	Gastric	stomach
7	chr9:98570400-98593800	Weak transcription	Right Atrium	heart
8	chr9:98570600-98579200	Weak transcription	Liver	Liver
9	chr9:98570600-98579600	Weak transcription	Duodenum Smooth Muscle	Duodenum
10	chr9:98570600-98585000	Weak transcription	Rectal Mucosa Donor 31	rectum
11	chr9:98570800-98601400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
12	chr9:98571000-98582000	Weak transcription	Skeletal Muscle Male	skeletal muscle
13	chr9:98572400-98579000	Weak transcription	Primary T cells from cord blood	blood
14	chr9:98572800-98582400	Weak transcription	Brain Germinal Matrix	brain
15	chr9:98573000-98585400	Weak transcription	Thymus	Thymus
16	chr9:98575800-98579600	Enhancers	HSMM	muscle
17	chr9:98575800-98579800	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
18	chr9:98576000-98579200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
19	chr9:98576000-98579800	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
20	chr9:98576000-98579800	Enhancers	Muscle Satellite Cultured Cells	--
21	chr9:98576000-98580000	Enhancers	A549	lung
22	chr9:98576000-98596000	Weak transcription	Aorta	Aorta
23	chr9:98576400-98578400	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
24	chr9:98576600-98581600	Weak transcription	Placenta Amnion	Placenta Amnion
25	chr9:98576800-98582200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
26	chr9:98576800-98584800	Weak transcription	Stomach Smooth Muscle	stomach
27	chr9:98577400-98578200	Flanking Active TSS	Hela-S3	cervix
28	chr9:98577400-98578200	Bivalent Enhancer	K562	blood
29	chr9:98577600-98578000	Enhancers	HSMMtube	muscle
30	chr9:98577600-98578400	Enhancers	Fetal Muscle Leg	muscle
31	chr9:98577600-98578600	Enhancers	Fetal Muscle Trunk	muscle
32	chr9:98577600-98578600	ZNF genes & repeats	Fetal Stomach	stomach
33	chr9:98577600-98578800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
34	chr9:98577600-98579200	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
35	chr9:98577600-98585600	Weak transcription	Pancreas	Pancrea
36	chr9:98577800-98578600	Enhancers	HUES48 Cell Line	embryonic stem cell
37	chr9:98577800-98578800	Enhancers	iPS-15b Cell Line	embryonic stem cell
38	chr9:98577800-98579000	Enhancers	HUES6 Cell Line	embryonic stem cell
39	chr9:98577800-98579000	Weak transcription	Ovary	ovary
40	chr9:98577800-98579000	Weak transcription	HUVEC	blood vessel
41	chr9:98577800-98584400	Weak transcription	NHLF	lung

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