Variant report

Variant	rs11923778
Chromosome Location	chr3:112008124-112008125
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	FOS	chr3:112007972-112008149	MCF10A-Er-Src	breast:	n/a	n/a
2	FOS	chr3:112008074-112008193	MCF10A-Er-Src	breast:	n/a	n/a
3	JUND	chr3:112007980-112008232	HepG2	liver:	n/a	chr3:112008090-112008101
4	STAT3	chr3:112008087-112008268	MCF10A-Er-Src	breast:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:111998157..111999865-chr3:112007204..112009141,2	MCF-7	breast:

Variant related genes	Relation type
SLC9C1	TF binding region

Extended variants
information (count: 70 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:67)

rs_ID	r²[population]
rs1032398	0.83[CHB][hapmap]
rs10934145	0.83[CHB][hapmap]
rs10934162	0.81[CHB][hapmap]
rs11707558	0.83[CHB][hapmap]
rs11922559	0.83[CHB][hapmap]
rs11929523	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11929540	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12488760	0.83[CHB][hapmap]
rs12491362	0.91[CHB][hapmap]
rs12634742	0.92[CHB][hapmap]
rs12634769	0.83[CHB][hapmap]
rs12637609	0.90[CHB][hapmap]
rs13081485	0.89[CHB][hapmap]
rs13081935	0.83[CHB][hapmap]
rs13082509	0.83[CHB][hapmap]
rs13087086	0.83[CHB][hapmap]
rs13100724	0.83[CHB][hapmap]
rs1492491	0.92[CHB][hapmap]
rs17446744	0.83[CHB][hapmap]
rs4234412	0.83[CHB][hapmap]
rs4234413	0.82[CHB][hapmap]
rs4282033	0.83[CHB][hapmap]
rs4282034	0.92[CHB][hapmap]
rs4299459	0.81[ASN][1000 genomes]
rs4300982	0.83[CHB][hapmap];0.80[ASN][1000 genomes]
rs4392388	0.83[CHB][hapmap]
rs4398404	0.81[CHB][hapmap]
rs4401342	0.83[CHB][hapmap]
rs4450779	0.81[CHB][hapmap]
rs4505669	0.83[CHB][hapmap]
rs4560270	0.83[CHB][hapmap]
rs4572740	0.83[CHB][hapmap]
rs4585166	0.83[CHB][hapmap]
rs4611789	0.83[CHB][hapmap]
rs4632517	0.83[CHB][hapmap]
rs4682097	0.83[CHB][hapmap]
rs4682380	0.83[CHB][hapmap]
rs4682394	0.93[ASN][1000 genomes]
rs56335531	0.82[ASN][1000 genomes]
rs57512585	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59043683	0.80[ASN][1000 genomes]
rs6769267	0.99[ASN][1000 genomes]
rs6773916	0.82[CHB][hapmap]
rs6781344	0.83[CHB][hapmap]
rs6791182	0.92[CHB][hapmap];0.82[ASN][1000 genomes]
rs6798551	0.83[CHB][hapmap]
rs71618779	0.94[ASN][1000 genomes]
rs73853382	0.80[ASN][1000 genomes]
rs7613061	0.83[CHB][hapmap]
rs7616261	0.83[CHB][hapmap]
rs7624367	0.83[CHB][hapmap]
rs7625173	0.92[CHB][hapmap];0.91[CHD][hapmap];0.86[ASN][1000 genomes]
rs7627314	0.83[CHB][hapmap]
rs7638520	0.83[CHB][hapmap]
rs7650498	0.91[ASN][1000 genomes]
rs9758396	0.91[CHB][hapmap]
rs9809384	0.83[CHB][hapmap]
rs9809404	0.83[CHB][hapmap]
rs9822786	0.83[CHB][hapmap]
rs9823421	0.83[CHB][hapmap]
rs9826043	0.82[CHB][hapmap]
rs9847574	0.82[CHB][hapmap]
rs9860819	0.83[CHB][hapmap]
rs9863061	0.82[CHB][hapmap]
rs9870132	0.91[CHB][hapmap]
rs9878213	0.83[CHB][hapmap]
rs9879184	0.82[CHB][hapmap]

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	nsv10307	chr3:111903974-112087686	Enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv877340	chr3:111936961-112013546	Active TSS Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv3949	chr3:111998512-112044060	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:112006600-112012400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr3:112007400-112010000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin

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