Variant report

Variant	rs17002976
Chromosome Location	chr4:79070258-79070259
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	chr4:79068664..79070445-chr4:79070622..79072179,2	MCF-7	breast:

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

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs10440393	0.90[ASN][1000 genomes]
rs10518186	0.89[ASN][1000 genomes]
rs10518187	0.85[ASN][1000 genomes]
rs17002933	0.89[ASN][1000 genomes]
rs17002934	0.89[ASN][1000 genomes]
rs17002936	0.89[ASN][1000 genomes]
rs17002939	0.89[ASN][1000 genomes]
rs17002940	0.89[ASN][1000 genomes]
rs17002949	1.00[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs17002950	0.89[ASN][1000 genomes]
rs17002955	1.00[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs17002961	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs1996390	0.89[ASN][1000 genomes]
rs4552489	0.89[ASN][1000 genomes]
rs4631075	0.89[ASN][1000 genomes]
rs4640694	0.89[ASN][1000 genomes]
rs56304889	0.89[ASN][1000 genomes]
rs56350977	0.89[ASN][1000 genomes]
rs56905033	0.89[ASN][1000 genomes]
rs57165692	0.89[ASN][1000 genomes]
rs57539827	0.89[ASN][1000 genomes]
rs57619651	0.89[ASN][1000 genomes]
rs57747683	1.00[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs58069750	0.87[ASN][1000 genomes]
rs58740255	0.89[ASN][1000 genomes]
rs58858744	0.89[ASN][1000 genomes]
rs59086902	0.89[ASN][1000 genomes]
rs59584338	0.89[ASN][1000 genomes]
rs59939614	0.80[ASN][1000 genomes]
rs60366235	0.89[ASN][1000 genomes]
rs72860603	0.89[ASN][1000 genomes]
rs72860604	0.89[ASN][1000 genomes]
rs72860615	0.89[ASN][1000 genomes]
rs72860619	0.89[ASN][1000 genomes]
rs72860622	0.89[ASN][1000 genomes]
rs72860623	0.89[ASN][1000 genomes]
rs72860640	0.89[ASN][1000 genomes]
rs7696002	0.85[ASN][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	nsv534024	chr4:78785189-79437403	ZNF genes & repeats Flanking Active TSS Enhancers Active TSS Weak transcription Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
2	nsv1009633	chr4:78887573-79652236	Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
3	nsv520625	chr4:79002655-79071788	Flanking Active TSS Strong transcription Weak transcription ZNF genes & repeats Enhancers Active TSS Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
4	nsv525530	chr4:79024524-79266563	Enhancers Weak transcription ZNF genes & repeats Genic enhancers Strong transcription Flanking Active TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
5	nsv879502	chr4:79052851-79144309	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
6	nsv1010782	chr4:79057839-79387207	Weak transcription Enhancers Strong transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:79054000-79070400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
2	chr4:79066600-79071000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
3	chr4:79067200-79070600	Weak transcription	HUES64 Cell Line	embryonic stem cell
4	chr4:79067200-79070800	Weak transcription	H1 Cell Line	embryonic stem cell
5	chr4:79067200-79078000	Weak transcription	Psoas Muscle	Psoas
6	chr4:79067800-79070800	Enhancers	HepG2	liver
7	chr4:79069800-79070400	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
8	chr4:79069800-79070800	Weak transcription	Fetal Kidney	kidney
9	chr4:79069800-79071400	Enhancers	HUES48 Cell Line	embryonic stem cell
10	chr4:79069800-79074400	Enhancers	Fetal Intestine Large	intestine
11	chr4:79069800-79074400	Enhancers	Fetal Intestine Small	intestine
12	chr4:79070000-79071600	Enhancers	iPS-20b Cell Line	embryonic stem cell
13	chr4:79070200-79071200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
14	chr4:79070200-79071200	Enhancers	Aorta	Aorta
15	chr4:79070200-79071400	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
16	chr4:79070200-79071400	Enhancers	H9 Cell Line	embryonic stem cell
17	chr4:79070200-79071400	Enhancers	iPS-18 Cell Line	embryonic stem cell
18	chr4:79070200-79071400	Enhancers	Pancreas	Pancrea
19	chr4:79070200-79072000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived

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