Variant report

Variant	rs7173779
Chromosome Location	chr15:41943511-41943512
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	chr15:41943079..41945148-chr15:41952416..41955327,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000174197	Chromatin interaction

Extended variants
information (count: 54 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:53)

rs_ID	r²[population]
rs1043627	0.84[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap]
rs1106934	0.92[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap]
rs11070346	0.86[ASN][1000 genomes]
rs11070349	1.00[CHB][hapmap];0.88[JPT][hapmap]
rs11547012	1.00[CHB][hapmap];0.89[JPT][hapmap]
rs11853665	0.85[ASN][1000 genomes]
rs11858843	1.00[CHB][hapmap];0.87[JPT][hapmap]
rs1197659	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1197668	1.00[CHB][hapmap];0.88[JPT][hapmap]
rs1197687	0.84[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap]
rs1197688	0.84[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap]
rs1197689	1.00[CHB][hapmap];0.94[JPT][hapmap]
rs1197690	0.84[CEU][hapmap];0.94[CHB][hapmap];0.94[JPT][hapmap]
rs1197773	0.85[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap]
rs1206842	1.00[CHB][hapmap];0.94[JPT][hapmap]
rs12439488	0.84[AMR][1000 genomes]
rs12439771	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs12440605	1.00[CHB][hapmap];0.88[JPT][hapmap]
rs12591253	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12591285	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12595271	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.80[ASN][1000 genomes]
rs12901742	0.93[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs16971915	0.92[CEU][hapmap];0.94[CHB][hapmap];0.94[JPT][hapmap];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1918312	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[YRI][hapmap];0.82[ASN][1000 genomes]
rs1918313	0.92[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.87[YRI][hapmap];0.80[ASN][1000 genomes]
rs2077361	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.86[ASN][1000 genomes]
rs2077543	1.00[CHB][hapmap];0.88[JPT][hapmap]
rs2241523	1.00[CHB][hapmap];0.88[JPT][hapmap]
rs2412640	1.00[CHB][hapmap];0.88[JPT][hapmap]
rs2577949	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs34405276	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs34769385	0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs35033220	0.86[ASN][1000 genomes]
rs35359048	0.80[ASN][1000 genomes]
rs3816533	1.00[CHB][hapmap];0.94[JPT][hapmap]
rs4072386	0.93[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs4923906	1.00[CEU][hapmap];0.84[ASN][1000 genomes]
rs4923907	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs4923917	1.00[CHB][hapmap];0.88[JPT][hapmap]
rs4924573	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.82[ASN][1000 genomes]
rs7166139	1.00[CHB][hapmap];0.88[JPT][hapmap]
rs7168386	0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7168489	0.86[ASN][1000 genomes]
rs7173431	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7174099	0.94[CHB][hapmap];0.89[JPT][hapmap]
rs7175346	0.94[CHB][hapmap];0.88[JPT][hapmap]
rs7177495	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs8024907	0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs8025614	0.82[JPT][hapmap]
rs8038764	0.81[ASN][1000 genomes]
rs9788715	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9788733	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9806709	0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1052902	chr15:41869277-41951572	Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Enhancers Weak transcription Strong transcription Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:41925000-41952200	Weak transcription	Ovary	ovary
2	chr15:41927000-41951800	Weak transcription	Hela-S3	cervix
3	chr15:41933200-41945000	Weak transcription	Right Atrium	heart
4	chr15:41940000-41947800	Weak transcription	Dnd41	blood
5	chr15:41941000-41951400	Weak transcription	Fetal Kidney	kidney
6	chr15:41941200-41952000	Weak transcription	HSMM	muscle
7	chr15:41941600-41947200	Weak transcription	Osteobl	bone
8	chr15:41941600-41952000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
9	chr15:41941600-41952000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
10	chr15:41941800-41947600	Weak transcription	NH-A	brain
11	chr15:41943200-41943800	ZNF genes & repeats	iPS-20b Cell Line	embryonic stem cell
12	chr15:41943400-41946600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
13	chr15:41943400-41952000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin

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