Variant report

Variant	rs11234921
Chromosome Location	chr11:86741834-86741835
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:86729696..86732227-chr11:86739805..86742002,2	MCF-7	breast:
2	chr11:86741218..86743533-chr11:86749277..86751879,2	MCF-7	breast:

Extended variants
information (count: 57 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:53)

rs_ID	r²[population]
rs1026410	1.00[CEU][hapmap]
rs10898598	1.00[CEU][hapmap];0.84[MEX][hapmap];0.80[TSI][hapmap]
rs11234908	0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11234913	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11234914	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11234915	0.83[AFR][1000 genomes];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11234916	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11234920	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11234922	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11234926	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11234927	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11234931	1.00[CEU][hapmap];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11234934	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11234935	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11234936	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11234949	1.00[CEU][hapmap]
rs12270428	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12272440	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12273779	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs12274647	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12278401	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12279443	1.00[CEU][hapmap]
rs12283115	1.00[CEU][hapmap]
rs12285441	1.00[CEU][hapmap];0.84[MEX][hapmap];0.80[TSI][hapmap]
rs12286127	0.89[EUR][1000 genomes]
rs12286867	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs12289216	0.90[EUR][1000 genomes]
rs12289267	1.00[CEU][hapmap];0.80[GIH][hapmap];0.92[MEX][hapmap];0.80[TSI][hapmap];0.90[EUR][1000 genomes]
rs12289978	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12294843	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13377595	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs17758940	1.00[CEU][hapmap];0.84[MEX][hapmap];0.80[TSI][hapmap]
rs17820632	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3740660	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.97[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap]
rs41376049	0.99[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4578415	1.00[CEU][hapmap]
rs509485	1.00[JPT][hapmap]
rs55724663	0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs56028118	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56117749	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs57933396	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs61119044	0.80[AFR][1000 genomes];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs61906164	0.99[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs61906166	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs61906167	0.99[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61906170	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61906173	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs61906192	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs61906193	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs61906194	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs61906203	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs61906207	0.90[EUR][1000 genomes]
rs7947757	0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1044081	chr11:86133641-86868560	Bivalent/Poised TSS Weak transcription Active TSS Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
2	nsv541118	chr11:86133641-86868560	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
3	nsv1037042	chr11:86586876-86978492	Enhancers Flanking Active TSS Strong transcription Active TSS Weak transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
4	nsv541119	chr11:86586876-86978492	Active TSS Enhancers Flanking Active TSS Bivalent/Poised TSS Weak transcription Transcr. at gene 5' and 3' ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11234921	C11orf82	cis	parietal	SCAN

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:86731800-86748200	Weak transcription	Fetal Muscle Leg	muscle
2	chr11:86735800-86748200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr11:86739200-86742000	Enhancers	HMEC	breast
4	chr11:86740600-86742600	Enhancers	HepG2	liver
5	chr11:86740600-86747600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
6	chr11:86740800-86747600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
7	chr11:86741000-86748000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
8	chr11:86741400-86742000	Enhancers	K562	blood
9	chr11:86741400-86742800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
10	chr11:86741600-86742000	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
11	chr11:86741600-86742200	Enhancers	Primary hematopoietic stem cells short term culture	blood
12	chr11:86741600-86742200	Enhancers	Dnd41	blood
13	chr11:86741600-86742400	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
14	chr11:86741800-86742000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
15	chr11:86741800-86742000	Enhancers	Primary monocytes fromperipheralblood	blood
16	chr11:86741800-86742000	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
17	chr11:86741800-86742000	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
18	chr11:86741800-86742000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
19	chr11:86741800-86742000	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
20	chr11:86741800-86742200	Enhancers	ES-I3 Cell Line	embryonic stem cell
21	chr11:86741800-86742200	Enhancers	Primary T helper cells PMA-I stimulated	--
22	chr11:86741800-86742200	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
23	chr11:86741800-86742200	Flanking Active TSS	Primary T regulatory cells fromperipheralblood	blood
24	chr11:86741800-86742200	Enhancers	Primary T killer memory cells from peripheral blood	blood
25	chr11:86741800-86742200	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
26	chr11:86741800-86742400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood

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