Variant report

Variant	rs4428434
Chromosome Location	chr5:177368518-177368519
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:175625956..175628511-chr5:177366543..177368721,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000248596	Chromatin interaction

Extended variants
information (count: 44 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs10464113	0.86[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs11738026	0.80[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs11740972	0.82[AFR][1000 genomes]
rs13157845	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap]
rs4246052	0.82[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs4318803	0.91[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs4318804	0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4327608	0.94[AFR][1000 genomes];0.88[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs4958942	0.91[AFR][1000 genomes];0.91[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs4958944	0.82[ASN][1000 genomes]
rs4958945	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap]
rs4958947	0.85[CEU][hapmap]
rs4958980	0.88[AFR][1000 genomes]
rs4958982	0.91[AFR][1000 genomes];0.87[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs4958983	0.89[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs4958984	0.92[AFR][1000 genomes];0.92[AMR][1000 genomes];0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4958991	0.80[ASN][1000 genomes]
rs4958992	0.87[ASN][1000 genomes]
rs4958995	0.84[AFR][1000 genomes];0.80[ASN][1000 genomes]
rs4959000	0.81[ASN][1000 genomes]
rs62397830	0.80[ASN][1000 genomes]
rs6601187	0.88[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs6601188	0.88[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs6864280	0.92[AFR][1000 genomes];0.87[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs6866295	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6875120	0.81[AFR][1000 genomes];0.83[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs6875636	0.93[AFR][1000 genomes];0.87[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs6880829	0.90[AFR][1000 genomes]
rs6881018	0.90[AFR][1000 genomes];0.86[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs6891157	0.81[AFR][1000 genomes];0.83[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs6896989	0.85[AFR][1000 genomes]
rs7703493	0.83[ASN][1000 genomes]
rs7705931	0.82[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap]
rs7706237	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap]
rs9764397	0.80[AFR][1000 genomes]
rs9764398	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.90[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs9765519	0.91[AFR][1000 genomes];0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1024444	chr5:176751921-177427715	Weak transcription Transcr. at gene 5' and 3' Enhancers Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Active TSS Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	142 gene(s)	inside rSNPs	diseases
2	esv2752795	chr5:176898619-177488281	Active TSS Strong transcription Flanking Active TSS Enhancers Weak transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	78 gene(s)	inside rSNPs	diseases
3	nsv1033211	chr5:177133646-177383386	Active TSS Strong transcription Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
4	nsv1030383	chr5:177310325-177571254	Bivalent Enhancer Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	34 gene(s)	inside rSNPs	diseases
5	nsv883184	chr5:177311043-177488281	Bivalent/Poised TSS Enhancers Active TSS Weak transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
6	nsv883185	chr5:177357964-177401509	Weak transcription Active TSS Enhancers Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
7	nsv521629	chr5:177364884-177396200	Flanking Active TSS Enhancers Bivalent/Poised TSS Bivalent Enhancer Active TSS Weak transcription Strong transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:31 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:177366000-177371200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
2	chr5:177366200-177371400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
3	chr5:177366200-177371400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
4	chr5:177366400-177370600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
5	chr5:177366400-177378800	Weak transcription	Fetal Intestine Small	intestine
6	chr5:177366600-177370000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
7	chr5:177366600-177370200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
8	chr5:177366600-177371400	Weak transcription	Skeletal Muscle Female	skeletal muscle
9	chr5:177366800-177368800	Weak transcription	Thymus	Thymus
10	chr5:177366800-177370200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
11	chr5:177366800-177370200	Weak transcription	Primary B cells from peripheral blood	blood
12	chr5:177366800-177370200	Weak transcription	Primary T helper cells PMA-I stimulated	--
13	chr5:177366800-177370200	Weak transcription	Primary T helper cells fromperipheralblood	blood
14	chr5:177366800-177370200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
15	chr5:177366800-177370600	Weak transcription	Primary B cells from cord blood	blood
16	chr5:177366800-177371400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
17	chr5:177366800-177371400	Weak transcription	Gastric	stomach
18	chr5:177366800-177371400	Weak transcription	Lung	lung
19	chr5:177367200-177370400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
20	chr5:177367200-177370800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
21	chr5:177367200-177370800	Weak transcription	Duodenum Mucosa	Duodenum
22	chr5:177367200-177370800	Weak transcription	HMEC	breast
23	chr5:177367200-177371400	Weak transcription	NHDF-Ad	bronchial
24	chr5:177367400-177369200	Enhancers	Fetal Thymus	thymus
25	chr5:177367400-177370000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
26	chr5:177367400-177370800	Weak transcription	Liver	Liver
27	chr5:177367400-177370800	Weak transcription	Pancreas	Pancrea
28	chr5:177368000-177369400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
29	chr5:177368200-177371200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
30	chr5:177368200-177396400	Weak transcription	Pancreatic Islets	Pancreatic Islet
31	chr5:177368400-177370400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--

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