Variant report

Variant	rs38128
Chromosome Location	chr7:20073828-20073829
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	chr7:20070077..20071655-chr7:20071816..20074085,2	MCF-7	breast:

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs38130	0.97[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs38131	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs38132	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs38134	0.95[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs38135	0.92[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs38139	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs38140	0.82[EUR][1000 genomes]
rs38143	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs38144	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs38145	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs38148	0.82[EUR][1000 genomes]
rs38150	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs38151	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs38152	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs38153	0.85[YRI][hapmap];0.82[EUR][1000 genomes]
rs38156	1.00[CEU][hapmap];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs38158	1.00[CEU][hapmap];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs38160	1.00[CEU][hapmap];0.81[YRI][hapmap];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62455485	0.94[EUR][1000 genomes]
rs62455486	0.94[EUR][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	nsv1033223	chr7:19682192-20461375	Enhancers Active TSS Flanking Active TSS Strong transcription Weak transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
2	nsv538795	chr7:19682192-20461375	Weak transcription Enhancers Active TSS Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
3	nsv1027445	chr7:19947297-20211733	Enhancers Active TSS Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
4	nsv887830	chr7:19970584-20114589	Enhancers Strong transcription Genic enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv1027849	chr7:20003094-20084998	Enhancers Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
6	esv2762658	chr7:20023224-20127561	Weak transcription Enhancers Strong transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
7	nsv1023992	chr7:20053816-20104675	Weak transcription Strong transcription Enhancers Genic enhancers Flanking Active TSS ZNF genes & repeats Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

No data

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:20060400-20075000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr7:20067000-20092800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr7:20068200-20077200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
4	chr7:20070000-20074000	Enhancers	NHDF-Ad	bronchial
5	chr7:20070400-20074800	Weak transcription	H1 Cell Line	embryonic stem cell
6	chr7:20071400-20075000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
7	chr7:20072200-20074000	Enhancers	Rectal Smooth Muscle	rectum
8	chr7:20072400-20074200	Enhancers	Colon Smooth Muscle	Colon
9	chr7:20072800-20074000	Enhancers	ES-I3 Cell Line	embryonic stem cell
10	chr7:20072800-20074000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
11	chr7:20073000-20074000	Enhancers	iPS-20b Cell Line	embryonic stem cell
12	chr7:20073000-20074200	Enhancers	HUES6 Cell Line	embryonic stem cell
13	chr7:20073000-20074400	Enhancers	HUES48 Cell Line	embryonic stem cell
14	chr7:20073000-20080600	Weak transcription	Pancreatic Islets	Pancreatic Islet
15	chr7:20073200-20074000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
16	chr7:20073200-20074200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
17	chr7:20073200-20074600	Enhancers	Osteobl	bone
18	chr7:20073200-20075400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
19	chr7:20073400-20074800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
20	chr7:20073400-20077200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
21	chr7:20073600-20074200	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
22	chr7:20073600-20075000	Weak transcription	H9 Cell Line	embryonic stem cell
23	chr7:20073800-20080600	Weak transcription	HUES64 Cell Line	embryonic stem cell

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