Variant report

Variant	rs9395876
Chromosome Location	chr6:53632969-53632970
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	chr6:53617168..53619456-chr6:53632557..53635306,2	MCF-7	breast:

Extended variants
information (count: 42 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs10456672	0.80[AMR][1000 genomes]
rs10755766	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1076701	0.85[CHB][hapmap];0.81[AMR][1000 genomes]
rs1076702	0.80[AMR][1000 genomes]
rs10948775	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11758147	0.80[AMR][1000 genomes]
rs4314499	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4345397	0.81[AMR][1000 genomes]
rs4373352	0.81[AMR][1000 genomes]
rs4400206	0.80[AMR][1000 genomes]
rs4404762	0.81[AMR][1000 genomes]
rs4441952	0.80[AMR][1000 genomes]
rs4516937	0.82[YRI][hapmap];0.81[AMR][1000 genomes]
rs4563705	0.81[AMR][1000 genomes]
rs4610551	0.92[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6903399	0.90[AMR][1000 genomes]
rs6908232	0.81[AMR][1000 genomes]
rs6921605	1.00[CHB][hapmap];0.95[JPT][hapmap];0.90[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs6934324	0.80[AMR][1000 genomes]
rs7763482	0.80[AMR][1000 genomes]
rs9349685	0.81[AMR][1000 genomes]
rs9357776	0.86[CHB][hapmap];0.82[JPT][hapmap]
rs9370233	1.00[YRI][hapmap];0.83[AMR][1000 genomes]
rs9382231	0.86[AFR][1000 genomes];0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9382232	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9382233	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9382235	1.00[CEU][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9382238	0.85[AMR][1000 genomes]
rs9382241	0.85[AMR][1000 genomes]
rs9382243	0.88[AMR][1000 genomes]
rs9382244	0.88[AMR][1000 genomes]
rs9382246	0.88[AMR][1000 genomes]
rs9382248	0.84[AMR][1000 genomes]
rs9382253	0.80[AMR][1000 genomes]
rs9382254	0.80[AMR][1000 genomes]
rs9382257	0.80[AMR][1000 genomes]
rs9395878	1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs9395881	0.86[AMR][1000 genomes]
rs9474646	0.81[AMR][1000 genomes]
rs9474649	0.90[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1034955	chr6:53447607-53931055	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Strong transcription Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
2	nsv1021506	chr6:53600338-53770482	Flanking Active TSS Weak transcription Enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:53601600-53638000	Weak transcription	Primary hematopoietic stem cells	blood
2	chr6:53618800-53635800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr6:53619400-53633400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
4	chr6:53629400-53633600	Enhancers	HSMMtube	muscle
5	chr6:53630400-53633200	Weak transcription	Fetal Muscle Leg	muscle
6	chr6:53630400-53633400	Weak transcription	NHEK	skin
7	chr6:53630400-53634400	Weak transcription	Placenta	Placenta
8	chr6:53630400-53634800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
9	chr6:53632000-53636000	Weak transcription	Aorta	Aorta
10	chr6:53632000-53639600	Weak transcription	Placenta Amnion	Placenta Amnion
11	chr6:53632200-53635400	Weak transcription	Fetal Heart	heart
12	chr6:53632200-53639000	Weak transcription	Gastric	stomach
13	chr6:53632800-53633400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
14	chr6:53632800-53633800	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr6:53632800-53633800	Enhancers	Cortex derived primary cultured neurospheres	brain

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