Variant report

Variant	rs4241515
Chromosome Location	chr3:23975475-23975476
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:23973653..23976851-chr3:23984603..23988994,4	MCF-7	breast:
2	chr3:23972068..23974390-chr3:23974759..23977973,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000174738	Chromatin interaction
ENSG00000197885	Chromatin interaction

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs11717862	0.85[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs13091509	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4131403	0.92[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs4241517	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4241520	0.85[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs4320034	0.86[AFR][1000 genomes]
rs4321479	0.81[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4589882	0.86[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs4619734	0.81[EUR][1000 genomes]
rs4858095	0.81[EUR][1000 genomes]
rs4858098	0.97[AFR][1000 genomes];0.86[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs4858567	0.97[AFR][1000 genomes];0.86[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs4858569	0.87[ASN][1000 genomes]
rs6419846	0.97[AFR][1000 genomes]
rs6550814	0.97[ASN][1000 genomes]
rs6550815	0.97[AFR][1000 genomes];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6550816	0.80[ASN][1000 genomes]
rs6550819	0.92[AFR][1000 genomes];0.85[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs6550823	0.97[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs6550824	0.92[AFR][1000 genomes]
rs6763241	0.80[ASN][1000 genomes]
rs6779476	0.81[EUR][1000 genomes]
rs6788335	0.80[ASN][1000 genomes]
rs6793391	0.84[AFR][1000 genomes]
rs6794922	0.92[AFR][1000 genomes];0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7371944	0.86[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs7431301	0.94[AFR][1000 genomes];0.86[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs7636810	0.94[ASN][1000 genomes]
rs9853532	0.93[ASN][1000 genomes]
rs9882735	0.89[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	nsv533980	chr3:23445901-24311972	ZNF genes & repeats Strong transcription Weak transcription Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	64 gene(s)	inside rSNPs	diseases
2	nsv834638	chr3:23963860-24117191	Enhancers Weak transcription Active TSS Genic enhancers Strong transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 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	chr3:23961800-23980200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr3:23962000-23977800	Weak transcription	Placenta Amnion	Placenta Amnion
3	chr3:23962000-23985600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
4	chr3:23963200-23976000	Weak transcription	Cortex derived primary cultured neurospheres	brain
5	chr3:23963800-23978400	Weak transcription	Aorta	Aorta
6	chr3:23964200-23985000	Weak transcription	Skeletal Muscle Male	skeletal muscle
7	chr3:23970400-23978600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
8	chr3:23973200-23982400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
9	chr3:23973400-23979600	Weak transcription	K562	blood
10	chr3:23973600-23978600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
11	chr3:23975000-23979600	Weak transcription	Fetal Heart	heart
12	chr3:23975200-23975600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
13	chr3:23975200-23976800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived

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