Variant report

Variant	rs73538039
Chromosome Location	chr9:98128203-98128204
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:98122032..98123783-chr9:98127156..98129896,2	MCF-7	breast:

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs1800360	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1886993	0.83[AMR][1000 genomes]
rs2121200	0.83[AMR][1000 genomes]
rs35108112	0.83[AMR][1000 genomes]
rs4647386	0.83[AMR][1000 genomes]
rs4647455	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4647473	0.83[AMR][1000 genomes]
rs4647505	0.83[AMR][1000 genomes]
rs57471585	0.83[AMR][1000 genomes]
rs7034939	1.00[AMR][1000 genomes]
rs7037729	0.83[AMR][1000 genomes]
rs73528466	1.00[AMR][1000 genomes]
rs73528478	1.00[AMR][1000 genomes]
rs73530498	0.83[AMR][1000 genomes]
rs73532103	0.83[AMR][1000 genomes]
rs73532167	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73532195	0.83[AMR][1000 genomes]
rs73532199	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73534887	0.83[AMR][1000 genomes]
rs73534888	0.83[AMR][1000 genomes]
rs73534898	0.83[AMR][1000 genomes]
rs73537212	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73539203	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73541330	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7854840	0.83[AMR][1000 genomes]
rs9792481	0.83[AMR][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	nsv831657	chr9:97959274-98204769	Enhancers Weak transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	32 gene(s)	inside rSNPs	diseases
2	nsv531633	chr9:98078300-98431120	Flanking Active TSS Active TSS Strong transcription Enhancers Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
3	nsv1045479	chr9:98115290-98172995	Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:98123400-98131000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr9:98123600-98128800	Weak transcription	HUES64 Cell Line	embryonic stem cell
3	chr9:98125600-98129000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr9:98125600-98129200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr9:98126000-98131800	Weak transcription	Colon Smooth Muscle	Colon
6	chr9:98126000-98132000	Weak transcription	HSMMtube	muscle
7	chr9:98127200-98128400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chr9:98127200-98128600	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr9:98127400-98129200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
10	chr9:98127800-98129000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
11	chr9:98127800-98129000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
12	chr9:98127800-98129200	Enhancers	HUES48 Cell Line	embryonic stem cell
13	chr9:98127800-98129400	Enhancers	Fetal Stomach	stomach
14	chr9:98127800-98129600	Enhancers	HUES6 Cell Line	embryonic stem cell
15	chr9:98128000-98128400	Bivalent Enhancer	iPS-18 Cell Line	embryonic stem cell
16	chr9:98128000-98129000	Weak transcription	H1 Cell Line	embryonic stem cell
17	chr9:98128000-98139200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
18	chr9:98128200-98128400	Bivalent Enhancer	Foreskin Melanocyte Primary Cells skin03	Skin
19	chr9:98128200-98129200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr9:98128200-98129800	Enhancers	iPS-15b Cell Line	embryonic stem cell

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