Variant report

Variant	rs2055989
Chromosome Location	chr3:145655148-145655149
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	STAT3	chr3:145654800-145655160	MCF10A-Er-Src	breast:	n/a	chr3:145654981-145654989 chr3:145655124-145655131
2	STAT3	chr3:145654776-145655190	MCF10A-Er-Src	breast:	n/a	chr3:145654981-145654989 chr3:145655124-145655131
3	FOS	chr3:145654725-145655197	MCF10A-Er-Src	breast:	n/a	n/a
4	STAT3	chr3:145654759-145655214	MCF10A-Er-Src	breast:	n/a	chr3:145654981-145654989 chr3:145655124-145655131
5	FOS	chr3:145654706-145655181	MCF10A-Er-Src	breast:	n/a	n/a
6	STAT3	chr3:145654780-145655190	MCF10A-Er-Src	breast:	n/a	chr3:145654981-145654989 chr3:145655124-145655131

Variant related genes	Relation type
ENSG00000244358	TF binding region

Extended variants
information (count: 48 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs1024079	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10935590	0.96[EUR][1000 genomes]
rs11921871	0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12488991	1.00[CEU][hapmap];0.96[EUR][1000 genomes]
rs13062906	0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13086070	0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1398776	1.00[CEU][hapmap];0.87[GIH][hapmap];0.88[TSI][hapmap];0.96[EUR][1000 genomes]
rs1403066	0.89[CHB][hapmap];0.90[JPT][hapmap];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs16857603	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.88[TSI][hapmap];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2864430	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.88[TSI][hapmap];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs34135782	0.90[ASN][1000 genomes]
rs35225711	0.96[EUR][1000 genomes]
rs6440405	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.88[TSI][hapmap];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs71300355	0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs71300356	0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7628962	0.94[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:32 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv877584	chr3:144903957-145833232	Genic enhancers Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
2	esv3379945	chr3:145351163-145679850	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	esv2751980	chr3:145473020-145758194	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv1013475	chr3:145478985-145750509	Strong transcription Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv1010509	chr3:145478985-145757483	Enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
6	nsv1005624	chr3:145486437-145750509	Flanking Active TSS Enhancers ZNF genes & repeats Weak transcription Active TSS Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
7	nsv999344	chr3:145506353-145750883	Enhancers Strong transcription Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
8	nsv536757	chr3:145506353-145750883	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
9	esv33307	chr3:145506383-145667833	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
10	nsv525829	chr3:145614317-145863779	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
11	esv2757015	chr3:145615852-145661771	Flanking Active TSS Enhancers Active TSS Weak transcription ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
12	esv2759186	chr3:145615852-145661771	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
13	nsv437347	chr3:145620810-145665218	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
14	esv3692795	chr3:145623801-145662176	Flanking Active TSS Enhancers Active TSS Weak transcription	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
15	nsv517206	chr3:145624626-145660362	Enhancers Weak transcription Active TSS Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
16	nsv1001959	chr3:145625014-145662460	Enhancers Active TSS Weak transcription Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
17	esv3462634	chr3:145626130-145662628	Enhancers Weak transcription Active TSS Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
18	nsv1010260	chr3:145626162-145662460	Enhancers Weak transcription Active TSS Flanking Active TSS	TF binding region lncRNA	2 gene(s)	inside rSNPs	diseases
19	esv3462633	chr3:145626179-145662566	Enhancers Weak transcription Active TSS Flanking Active TSS	TF binding region lncRNA	2 gene(s)	inside rSNPs	diseases
20	esv3462635	chr3:145626179-145662566	Enhancers Active TSS Flanking Active TSS Weak transcription	TF binding region lncRNA	2 gene(s)	inside rSNPs	diseases
21	esv17858	chr3:145626322-145662143	Weak transcription Enhancers Active TSS Flanking Active TSS	TF binding region lncRNA	2 gene(s)	inside rSNPs	diseases
22	nsv818172	chr3:145626368-145660362	Weak transcription Enhancers Active TSS Flanking Active TSS	TF binding region lncRNA	2 gene(s)	inside rSNPs	diseases
23	nsv1014187	chr3:145628903-145662154	Weak transcription Flanking Active TSS Enhancers Active TSS	TF binding region lncRNA	2 gene(s)	inside rSNPs	diseases
24	nsv1003059	chr3:145628903-145662460	Enhancers Weak transcription Flanking Active TSS Active TSS	TF binding region lncRNA	2 gene(s)	inside rSNPs	diseases
25	esv2762348	chr3:145628903-145662472	Enhancers Flanking Active TSS Weak transcription Active TSS	TF binding region lncRNA	2 gene(s)	inside rSNPs	diseases
26	nsv1012874	chr3:145631140-145662154	Enhancers Weak transcription Flanking Active TSS Active TSS	TF binding region lncRNA	2 gene(s)	inside rSNPs	diseases
27	nsv1004210	chr3:145631140-145662460	Active TSS Enhancers Weak transcription Flanking Active TSS	TF binding region lncRNA	2 gene(s)	inside rSNPs	diseases
28	nsv1009264	chr3:145631740-145662460	Enhancers Active TSS Weak transcription Flanking Active TSS	TF binding region lncRNA	2 gene(s)	inside rSNPs	diseases
29	nsv1001140	chr3:145633190-145661939	Enhancers Weak transcription Active TSS Flanking Active TSS	TF binding region lncRNA	2 gene(s)	inside rSNPs	diseases
30	nsv998647	chr3:145642499-145660801	Enhancers Weak transcription Flanking Active TSS Active TSS	TF binding region lncRNA	2 gene(s)	inside rSNPs	diseases
31	nsv1015058	chr3:145642499-145661545	Weak transcription Enhancers Flanking Active TSS Active TSS	TF binding region lncRNA	2 gene(s)	inside rSNPs	diseases
32	nsv508252	chr3:145643496-145655721	Weak transcription Active TSS Enhancers Flanking Active TSS	TF binding region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:145654400-145655200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
2	chr3:145654400-145655400	Enhancers	Osteobl	bone
3	chr3:145654800-145655200	Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

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