Variant report

Variant	rs1608871
Chromosome Location	chr11:28053633-28053634
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 53 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:51)

rs_ID	r²[population]
rs1032090	0.93[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.85[MKK][hapmap];1.00[TSI][hapmap];0.83[YRI][hapmap];0.88[EUR][1000 genomes]
rs1032091	0.82[EUR][1000 genomes]
rs10767697	0.93[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.90[MKK][hapmap];1.00[TSI][hapmap];0.83[YRI][hapmap];0.88[EUR][1000 genomes]
rs10767705	0.85[EUR][1000 genomes]
rs10767710	0.82[EUR][1000 genomes]
rs10835259	0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10835275	0.81[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs10835280	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.87[EUR][1000 genomes]
rs10835282	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.87[EUR][1000 genomes]
rs10835286	0.87[EUR][1000 genomes]
rs10835294	0.85[EUR][1000 genomes]
rs10835298	0.83[EUR][1000 genomes]
rs11030193	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11030197	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11030201	0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11030203	0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11030204	0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11030223	0.84[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs11030227	0.88[EUR][1000 genomes]
rs11030228	0.80[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs11030262	0.85[EUR][1000 genomes]
rs11030267	0.81[EUR][1000 genomes]
rs12294035	0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12360577	0.93[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.91[MEX][hapmap];0.85[MKK][hapmap];1.00[TSI][hapmap];0.83[YRI][hapmap];0.83[AFR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12806548	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.98[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];0.81[AFR][1000 genomes];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1384904	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes]
rs1483861	0.93[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.96[MEX][hapmap];0.84[MKK][hapmap];0.98[TSI][hapmap];0.83[YRI][hapmap];0.88[EUR][1000 genomes]
rs1564745	0.82[EUR][1000 genomes]
rs17244296	0.89[AFR][1000 genomes];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2046372	1.00[CEU][hapmap];0.87[EUR][1000 genomes]
rs2128956	0.86[EUR][1000 genomes]
rs2128958	0.93[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];1.00[TSI][hapmap];0.94[YRI][hapmap];0.81[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs2140886	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2140887	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.94[LWK][hapmap];1.00[MEX][hapmap];0.85[MKK][hapmap];1.00[TSI][hapmap];0.88[YRI][hapmap];0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2354426	0.86[EUR][1000 genomes]
rs4923522	0.81[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.90[MKK][hapmap];1.00[TSI][hapmap];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4923525	0.81[EUR][1000 genomes]
rs6484352	0.86[EUR][1000 genomes]
rs6484357	0.86[EUR][1000 genomes]
rs6484361	0.85[EUR][1000 genomes]
rs7105075	0.87[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7107992	0.93[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.97[LWK][hapmap];0.89[MKK][hapmap];0.83[YRI][hapmap];0.84[EUR][1000 genomes]
rs7108140	0.84[EUR][1000 genomes]
rs7121923	0.83[EUR][1000 genomes]
rs7127104	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.84[EUR][1000 genomes]
rs7128488	0.93[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.90[MKK][hapmap];1.00[TSI][hapmap];0.83[YRI][hapmap];0.81[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs7482650	0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7924896	0.83[EUR][1000 genomes]
rs7944852	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs960357	0.96[CEU][hapmap];0.96[MEX][hapmap];0.93[TSI][hapmap];0.82[EUR][1000 genomes]
rs997555	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[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	nsv897149	chr11:28002783-28068983	Weak transcription Strong transcription Active TSS Enhancers ZNF genes & repeats Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv832096	chr11:28020435-28155586	Flanking Active TSS Strong transcription Enhancers Weak transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:46 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:28024200-28057200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
2	chr11:28024200-28080400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
3	chr11:28024200-28099000	Weak transcription	Thymus	Thymus
4	chr11:28029400-28056000	Weak transcription	NH-A	brain
5	chr11:28031200-28070400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
6	chr11:28031200-28097400	Weak transcription	HMEC	breast
7	chr11:28031400-28062000	Weak transcription	NHEK	skin
8	chr11:28031600-28062600	Weak transcription	Muscle Satellite Cultured Cells	--
9	chr11:28032600-28059000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
10	chr11:28032600-28079200	Weak transcription	NHDF-Ad	bronchial
11	chr11:28033800-28057800	Weak transcription	K562	blood
12	chr11:28034000-28080400	Weak transcription	Primary B cells from cord blood	blood
13	chr11:28034000-28125800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr11:28037600-28055000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
15	chr11:28037800-28102800	Weak transcription	HepG2	liver
16	chr11:28038400-28065800	Weak transcription	Fetal Lung	lung
17	chr11:28039800-28070400	Weak transcription	Osteobl	bone
18	chr11:28042800-28057800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
19	chr11:28043800-28082000	Weak transcription	Cortex derived primary cultured neurospheres	brain
20	chr11:28044800-28055800	Weak transcription	Primary hematopoietic stem cells	blood
21	chr11:28045200-28056000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
22	chr11:28045400-28054800	Weak transcription	Monocytes-CD14+_RO01746	blood
23	chr11:28045400-28056000	Weak transcription	HUVEC	blood vessel
24	chr11:28045400-28056200	Weak transcription	Primary monocytes fromperipheralblood	blood
25	chr11:28045400-28056800	Weak transcription	HUES48 Cell Line	embryonic stem cell
26	chr11:28045400-28057000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
27	chr11:28045400-28057600	Weak transcription	HUES6 Cell Line	embryonic stem cell
28	chr11:28045400-28069600	Weak transcription	Hela-S3	cervix
29	chr11:28045400-28079200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
30	chr11:28045400-28079800	Weak transcription	Primary neutrophils fromperipheralblood	blood
31	chr11:28045400-28080600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
32	chr11:28045600-28054600	Weak transcription	HSMM	muscle
33	chr11:28045800-28057800	Weak transcription	Fetal Thymus	thymus
34	chr11:28046200-28054600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
35	chr11:28046400-28056000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
36	chr11:28051600-28059400	Weak transcription	Fetal Heart	heart
37	chr11:28051600-28093600	Weak transcription	NHLF	lung
38	chr11:28052600-28056400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
39	chr11:28053200-28054000	ZNF genes & repeats	Dnd41	blood
40	chr11:28053200-28057200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
41	chr11:28053200-28057200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
42	chr11:28053400-28054400	Weak transcription	A549	lung
43	chr11:28053600-28054200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
44	chr11:28053600-28054600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
45	chr11:28053600-28056400	Weak transcription	HUES64 Cell Line	embryonic stem cell
46	chr11:28053600-28060000	Weak transcription	H1 Cell Line	embryonic stem cell

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