Variant report

Variant	rs17035270
Chromosome Location	chr4:106036545-106036546
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	chr4:106022926..106025041-chr4:106035564..106037106,2	MCF-7	breast:

Extended variants
information (count: 26 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs10000800	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11734200	1.00[JPT][hapmap]
rs11947243	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs1490579	1.00[JPT][hapmap]
rs17035193	1.00[JPT][hapmap]
rs17429654	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs195147	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs195148	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2107054	0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs28590233	0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs28622070	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs28758290	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs5008225	1.00[JPT][hapmap]
rs57328508	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6533178	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs66758084	0.83[EUR][1000 genomes]
rs67149069	0.83[EUR][1000 genomes]
rs6825425	1.00[JPT][hapmap]
rs6845933	1.00[JPT][hapmap]
rs72665903	0.92[EUR][1000 genomes]
rs7670900	1.00[CHB][hapmap];1.00[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv461609	chr4:105869548-106366209	Weak transcription Strong transcription Genic enhancers Enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
2	nsv470063	chr4:105869548-106366209	Transcr. at gene 5' and 3' Strong transcription Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
3	nsv595007	chr4:105869548-106366209	Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Enhancers Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
4	nsv830024	chr4:105884350-106037816	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
5	nsv830025	chr4:105988876-106137946	Enhancers Weak transcription Active TSS ZNF genes & repeats Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs17035270	CXXC4	cis	cerebellum	SCAN

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:106032600-106038000	Enhancers	Primary neutrophils fromperipheralblood	blood
2	chr4:106032600-106038400	Enhancers	Primary monocytes fromperipheralblood	blood
3	chr4:106033000-106036800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
4	chr4:106033600-106037000	Enhancers	Primary hematopoietic stem cells short term culture	blood
5	chr4:106035400-106037800	Weak transcription	Primary B cells from cord blood	blood
6	chr4:106035800-106037400	Enhancers	Monocytes-CD14+_RO01746	blood
7	chr4:106036200-106041600	Weak transcription	Primary hematopoietic stem cells	blood
8	chr4:106036400-106041600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--

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