Variant report

Variant	rs11097893
Chromosome Location	chr4:106475092-106475093
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	chr4:106473010..106475476-chr4:106482085..106484725,2	MCF-7	breast:
2	chr4:106474325..106476444-chr4:106476458..106478164,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000249885	Chromatin interaction

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

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

rs_ID	r²[population]
rs11931966	1.00[ASW][hapmap]
rs11946577	0.85[ASN][1000 genomes]
rs12505821	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs17035656	0.83[CHD][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs17430855	1.00[ASN][1000 genomes]
rs17508919	1.00[ASN][1000 genomes]
rs17617731	1.00[ASN][1000 genomes]
rs2023839	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs36024005	0.99[ASN][1000 genomes]
rs3756258	0.92[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.93[MEX][hapmap];1.00[ASN][1000 genomes]
rs3796915	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3864227	0.85[ASN][1000 genomes]
rs55803474	1.00[ASN][1000 genomes]
rs57424681	1.00[ASN][1000 genomes]
rs60895554	0.94[ASN][1000 genomes]
rs6830281	0.83[CHD][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs6831259	0.83[ASN][1000 genomes]
rs72953753	0.98[ASN][1000 genomes]
rs72957598	1.00[ASN][1000 genomes]
rs72959641	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[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	nsv879699	chr4:106212562-106698892	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
2	nsv1005011	chr4:106461690-106496019	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv1013019	chr4:106461690-106501412	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
4	nsv524424	chr4:106466128-106491511	Weak transcription Enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv461610	chr4:106466128-106491511	Enhancers Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
6	nsv595008	chr4:106466128-106491511	Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
7	nsv517837	chr4:106466588-106502513	Weak transcription Flanking Bivalent TSS/Enh Enhancers Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:106470000-106476600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
2	chr4:106472200-106477600	Active TSS	Rectal Mucosa Donor 29	rectum
3	chr4:106473000-106475400	Active TSS	Pancreas	Pancrea
4	chr4:106473400-106475200	Active TSS	Fetal Stomach	stomach
5	chr4:106473400-106476400	Weak transcription	Cortex derived primary cultured neurospheres	brain
6	chr4:106473600-106475600	Active TSS	Rectal Mucosa Donor 31	rectum
7	chr4:106473600-106477400	Active TSS	Duodenum Mucosa	Duodenum
8	chr4:106473600-106477600	Active TSS	Fetal Intestine Large	intestine
9	chr4:106473600-106477600	Weak transcription	Gastric	stomach
10	chr4:106473800-106476200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr4:106474000-106475400	Active TSS	Fetal Intestine Small	intestine
12	chr4:106474000-106476200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr4:106474000-106477400	Weak transcription	Fetal Lung	lung
14	chr4:106474200-106476400	Weak transcription	Placenta	Placenta
15	chr4:106474600-106476600	Weak transcription	Stomach Mucosa	stomach
16	chr4:106474800-106477000	Weak transcription	Fetal Kidney	kidney
17	chr4:106474800-106479400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
18	chr4:106475000-106475600	Active TSS	Lung	lung

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