Variant report

Variant	rs73558998
Chromosome Location	chr9:117954724-117954725
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:117953158..117955908-chr9:117957675..117960563,2	MCF-7	breast:

Extended variants
information (count: 22 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs2418336	1.00[AMR][1000 genomes]
rs57869818	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7028078	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7035499	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73551051	1.00[AMR][1000 genomes]
rs73553184	1.00[AMR][1000 genomes]
rs73553201	1.00[AMR][1000 genomes]
rs73555006	1.00[AMR][1000 genomes]
rs73555009	1.00[AMR][1000 genomes]
rs73555011	1.00[AMR][1000 genomes]
rs73555021	1.00[AMR][1000 genomes]
rs73556825	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73556836	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73556838	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73556860	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73558939	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73561148	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73561155	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv615250	chr9:117768021-118012841	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv916912	chr9:117770039-118014140	Flanking Active TSS Enhancers Strong transcription Genic enhancers Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv831697	chr9:117860416-118023927	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv893769	chr9:117936903-117985886	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:31 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:117930000-117964400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr9:117945600-117959400	Weak transcription	Fetal Kidney	kidney
3	chr9:117945800-117959600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr9:117953600-117955200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr9:117953800-117955400	Enhancers	Primary B cells from peripheral blood	blood
6	chr9:117953800-117955600	Enhancers	GM12878-XiMat	blood
7	chr9:117954000-117954800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chr9:117954000-117954800	Enhancers	iPS-18 Cell Line	embryonic stem cell
9	chr9:117954000-117954800	Enhancers	iPS-20b Cell Line	embryonic stem cell
10	chr9:117954000-117954800	Enhancers	Small Intestine	intestine
11	chr9:117954000-117955200	Enhancers	Fetal Intestine Large	intestine
12	chr9:117954000-117955400	Enhancers	Duodenum Mucosa	Duodenum
13	chr9:117954000-117955400	Enhancers	Fetal Intestine Small	intestine
14	chr9:117954000-117955600	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
15	chr9:117954000-117956400	Enhancers	ES-I3 Cell Line	embryonic stem cell
16	chr9:117954000-117956800	Enhancers	HUES48 Cell Line	embryonic stem cell
17	chr9:117954000-117956800	Enhancers	HUES64 Cell Line	embryonic stem cell
18	chr9:117954000-117956800	Enhancers	iPS-15b Cell Line	embryonic stem cell
19	chr9:117954000-117956800	Enhancers	Fetal Muscle Leg	muscle
20	chr9:117954200-117955600	Enhancers	Monocytes-CD14+_RO01746	blood
21	chr9:117954400-117955000	Weak transcription	Cortex derived primary cultured neurospheres	brain
22	chr9:117954400-117955200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
23	chr9:117954400-117955200	Weak transcription	Placenta	Placenta
24	chr9:117954400-117957400	Enhancers	Colon Smooth Muscle	Colon
25	chr9:117954600-117955000	Weak transcription	Spleen	Spleen
26	chr9:117954600-117955200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
27	chr9:117954600-117955400	Weak transcription	HUES6 Cell Line	embryonic stem cell
28	chr9:117954600-117955400	Weak transcription	Stomach Smooth Muscle	stomach
29	chr9:117954600-117957000	Enhancers	NHLF	lung
30	chr9:117954600-117957400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
31	chr9:117954600-117959400	Weak transcription	Rectal Smooth Muscle	rectum

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