Variant report

Variant	rs11890075
Chromosome Location	chr2:160965266-160965267
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr2:160963372..160965662-chr2:161085963..161088165,2	MCF-7	breast:
2	chr2:160964286..160967312-chr2:161082194..161085973,4	MCF-7	breast:
3	chr2:160964387..160968256-chr2:161077211..161080822,5	MCF-7	breast:

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs10165829	0.81[ASN][1000 genomes]
rs10165927	0.97[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10176194	1.00[CEU][hapmap];0.95[CHD][hapmap];0.88[GIH][hapmap];0.94[JPT][hapmap];1.00[TSI][hapmap];0.97[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10179610	0.88[CHB][hapmap];0.88[CHD][hapmap]
rs10206615	0.84[YRI][hapmap]
rs1156821	0.88[CHB][hapmap];0.85[CHD][hapmap]
rs11884373	0.81[ASN][1000 genomes]
rs12469192	1.00[ASN][1000 genomes]
rs12470622	1.00[ASN][1000 genomes]
rs12477682	1.00[ASN][1000 genomes]
rs12478021	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs13390820	1.00[ASN][1000 genomes]
rs13394453	0.94[CHB][hapmap];0.94[JPT][hapmap];0.87[ASN][1000 genomes]
rs13401953	0.88[ASN][1000 genomes]
rs13403826	1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs13429856	1.00[ASN][1000 genomes]
rs13432255	0.98[ASN][1000 genomes]
rs13432522	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16844726	1.00[CEU][hapmap];0.87[JPT][hapmap];0.94[EUR][1000 genomes]
rs16844830	0.87[ASN][1000 genomes]
rs2667026	0.90[CHD][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs3109389	0.94[JPT][hapmap]
rs34761275	1.00[ASN][1000 genomes]
rs3755547	0.94[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs4337434	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs4473342	0.94[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs4580348	0.91[YRI][hapmap]
rs59236613	0.97[ASN][1000 genomes]
rs61377083	0.97[ASN][1000 genomes]
rs62175554	0.98[ASN][1000 genomes]
rs6432594	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.89[MEX][hapmap];0.90[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6735425	0.98[ASN][1000 genomes]
rs6747699	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs6758074	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs6760500	1.00[ASN][1000 genomes]
rs73006633	0.98[EUR][1000 genomes]
rs7569555	0.80[YRI][hapmap]
rs7586660	0.94[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs7599127	0.98[ASN][1000 genomes]
rs925409	0.88[JPT][hapmap]
rs9973856	0.89[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv459929	chr2:160963603-161079435	Enhancers Active TSS Genic enhancers Flanking Active TSS Strong transcription Weak transcription Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	nsv583497	chr2:160963603-161079435	Enhancers Weak transcription Strong transcription Genic enhancers Active TSS ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:31 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:160950800-160967000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr2:160953200-160970800	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr2:160954600-160970800	Weak transcription	Rectal Mucosa Donor 29	rectum
4	chr2:160954600-160993000	Weak transcription	Duodenum Mucosa	Duodenum
5	chr2:160954800-160966200	Weak transcription	Fetal Intestine Small	intestine
6	chr2:160955800-160968800	Weak transcription	Fetal Muscle Trunk	muscle
7	chr2:160956200-160965600	Strong transcription	HMEC	breast
8	chr2:160957000-160970200	Weak transcription	Pancreas	Pancrea
9	chr2:160957400-160981200	Weak transcription	Lung	lung
10	chr2:160959200-161004200	Weak transcription	Gastric	stomach
11	chr2:160959400-160985200	Weak transcription	Esophagus	oesophagus
12	chr2:160959400-161032800	Weak transcription	Psoas Muscle	Psoas
13	chr2:160959800-160965800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
14	chr2:160960000-160966400	Weak transcription	HSMMtube	muscle
15	chr2:160960400-160965600	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
16	chr2:160961000-160965600	Weak transcription	Rectal Mucosa Donor 31	rectum
17	chr2:160962000-160966200	Strong transcription	HSMM	muscle
18	chr2:160962400-160970800	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
19	chr2:160962800-160971000	Strong transcription	Placenta Amnion	Placenta Amnion
20	chr2:160963800-160969200	Strong transcription	Skeletal Muscle Male	skeletal muscle
21	chr2:160964200-160993600	Weak transcription	Fetal Muscle Leg	muscle
22	chr2:160964400-160965800	Weak transcription	Skeletal Muscle Female	skeletal muscle
23	chr2:160964400-160967000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
24	chr2:160964400-160993600	Weak transcription	Fetal Intestine Large	intestine
25	chr2:160964600-160965400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
26	chr2:160964800-160966200	Enhancers	Monocytes-CD14+_RO01746	blood
27	chr2:160964800-160970800	Weak transcription	Stomach Mucosa	stomach
28	chr2:160965000-160966400	Enhancers	Primary monocytes fromperipheralblood	blood
29	chr2:160965000-160968200	Genic enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
30	chr2:160965200-160965600	Weak transcription	NHEK	skin
31	chr2:160965200-160968000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

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