Variant report

Variant	rs4725857
Chromosome Location	chr7:139543904-139543905
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	chr7:139475795..139478198-chr7:139542800..139544327,2	K562	blood:
2	chr7:139542430..139544176-chr7:139554608..139557543,2	K562	blood:

Variant related genes	Relation type
ENSG00000059377	Chromatin interaction
ENSG00000064393	Chromatin interaction

Extended variants
information (count: 24 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs10237429	1.00[JPT][hapmap]
rs10253277	0.87[CHD][hapmap];0.88[GIH][hapmap];0.81[TSI][hapmap]
rs10256282	0.87[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];0.80[TSI][hapmap]
rs12534299	0.80[CEU][hapmap];0.87[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];0.81[TSI][hapmap]
rs194152	0.81[CEU][hapmap];1.00[JPT][hapmap]
rs1990354	0.85[GIH][hapmap]
rs2107900	0.86[ASW][hapmap];0.85[CEU][hapmap];0.87[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.91[MKK][hapmap];0.93[TSI][hapmap];0.89[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs2267679	0.81[CEU][hapmap];0.87[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];0.83[TSI][hapmap]
rs2267682	0.89[TSI][hapmap];0.86[EUR][1000 genomes]
rs4590360	0.87[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];0.81[TSI][hapmap]
rs6946849	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6951759	0.87[CHD][hapmap];0.85[GIH][hapmap]
rs6952056	0.92[ASW][hapmap];1.00[CEU][hapmap];0.87[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.83[MKK][hapmap];0.98[TSI][hapmap];0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6974960	0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs764745	1.00[JPT][hapmap]
rs764746	0.87[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];0.81[TSI][hapmap]
rs7796073	0.89[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7810415	0.85[CEU][hapmap];1.00[CHB][hapmap];0.88[CHD][hapmap];0.97[GIH][hapmap];0.89[JPT][hapmap];0.88[MEX][hapmap];0.91[TSI][hapmap];0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1020234	chr7:139377822-139661964	Flanking Active TSS Enhancers Weak transcription Genic enhancers Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv1032711	chr7:139411404-139684043	Weak transcription Enhancers Transcr. at gene 5' and 3' Genic enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv464732	chr7:139424022-139654256	Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
4	nsv608472	chr7:139424022-139654256	Flanking Active TSS Enhancers Weak transcription Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
5	nsv1018712	chr7:139429703-139658014	Flanking Active TSS Weak transcription Active TSS Enhancers Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
6	nsv831156	chr7:139532318-139694326	Genic enhancers Weak transcription Strong transcription Enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs4725857	KEL	cis	parietal	SCAN

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:139531400-139544600	Weak transcription	Gastric	stomach
2	chr7:139531400-139553800	Weak transcription	Primary T cells from cord blood	blood
3	chr7:139531400-139572600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
4	chr7:139540600-139545000	Genic enhancers	Primary monocytes fromperipheralblood	blood
5	chr7:139540800-139544400	Weak transcription	Pancreas	Pancrea
6	chr7:139540800-139544800	Weak transcription	Esophagus	oesophagus
7	chr7:139541000-139555200	Weak transcription	Thymus	Thymus
8	chr7:139542400-139546000	Weak transcription	HepG2	liver
9	chr7:139542400-139546200	Enhancers	Rectal Mucosa Donor 31	rectum
10	chr7:139542400-139546400	Enhancers	Duodenum Mucosa	Duodenum
11	chr7:139542400-139551600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
12	chr7:139542600-139544000	Weak transcription	Hela-S3	cervix
13	chr7:139542600-139544200	Weak transcription	Primary neutrophils fromperipheralblood	blood
14	chr7:139542600-139548000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
15	chr7:139542800-139544000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
16	chr7:139542800-139547000	Weak transcription	Primary hematopoietic stem cells	blood
17	chr7:139542800-139551600	Strong transcription	Monocytes-CD14+_RO01746	blood
18	chr7:139543000-139544000	Strong transcription	Primary hematopoietic stem cells short term culture	blood
19	chr7:139543000-139544400	Weak transcription	Stomach Mucosa	stomach
20	chr7:139543000-139544600	Weak transcription	Spleen	Spleen
21	chr7:139543000-139548200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
22	chr7:139543000-139551800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
23	chr7:139543200-139554000	Weak transcription	Fetal Thymus	thymus
24	chr7:139543800-139544600	Weak transcription	Lung	lung
25	chr7:139543800-139549800	Weak transcription	Fetal Lung	lung

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