Variant report

Variant	rs1221003
Chromosome Location	chr3:150925623-150925624
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:150886462..150889127-chr3:150925386..150928089,2	MCF-7	breast:

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs1017348	0.85[CEU][hapmap]
rs1221002	0.85[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1221004	0.88[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs1231519	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1231520	0.94[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs1920397	0.85[CEU][hapmap];0.87[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2141630	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2567325	0.81[CEU][hapmap];0.89[CHB][hapmap];0.94[JPT][hapmap];0.81[AMR][1000 genomes]
rs2700470	0.89[AMR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4680158	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs57504644	0.80[ASN][1000 genomes]
rs6440722	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv460894	chr3:150770614-151095093	Enhancers Flanking Bivalent TSS/Enh Weak transcription Strong transcription Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
2	nsv592045	chr3:150770614-151095093	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
3	esv2757897	chr3:150791625-150957485	ZNF genes & repeats Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	esv2759188	chr3:150791625-150957485	Weak transcription Enhancers Bivalent Enhancer Bivalent/Poised TSS Active TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:32 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:150878000-150946000	Weak transcription	Placenta	Placenta
2	chr3:150896200-150927800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr3:150908800-150933200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
4	chr3:150911800-150928600	Weak transcription	HUES64 Cell Line	embryonic stem cell
5	chr3:150917000-150931600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr3:150919800-150933400	Weak transcription	Primary B cells from cord blood	blood
7	chr3:150921000-150927400	Weak transcription	Thymus	Thymus
8	chr3:150921400-150927200	Weak transcription	Primary hematopoietic stem cells	blood
9	chr3:150921400-150929200	Enhancers	Primary T helper naive cells fromperipheralblood	blood
10	chr3:150923000-150925800	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
11	chr3:150923000-150927400	Weak transcription	HepG2	liver
12	chr3:150923000-150928400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
13	chr3:150923200-150929200	Enhancers	Primary T cells from cord blood	blood
14	chr3:150923400-150926000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
15	chr3:150923400-150926000	Enhancers	Primary T helper cells fromperipheralblood	blood
16	chr3:150923600-150926000	Enhancers	Primary T helper naive cells from peripheral blood	blood
17	chr3:150923600-150928600	Enhancers	Primary T helper cells PMA-I stimulated	--
18	chr3:150923800-150925800	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
19	chr3:150923800-150926600	Weak transcription	Fetal Thymus	thymus
20	chr3:150923800-150928000	Weak transcription	Sigmoid Colon	Sigmoid Colon
21	chr3:150923800-150928400	Weak transcription	Brain Germinal Matrix	brain
22	chr3:150923800-150928600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
23	chr3:150923800-150928600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
24	chr3:150925200-150925800	Genic enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
25	chr3:150925200-150926000	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
26	chr3:150925200-150927000	Genic enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
27	chr3:150925200-150927200	Enhancers	Primary T regulatory cells fromperipheralblood	blood
28	chr3:150925400-150926200	Weak transcription	Primary T cells fromperipheralblood	blood
29	chr3:150925400-150928600	Enhancers	Fetal Intestine Large	intestine
30	chr3:150925600-150926800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
31	chr3:150925600-150927600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
32	chr3:150925600-150928600	Weak transcription	Primary neutrophils fromperipheralblood	blood

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