Variant report

Variant	rs11042115
Chromosome Location	chr11:8926679-8926680
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr11:8922687..8924837-chr11:8924953..8926686,2	K562	blood:
2	chr11:8925893..8928872-chr11:8930220..8933061,3	MCF-7	breast:
3	chr11:8903715..8906519-chr11:8925903..8928507,2	K562	blood:

Variant related genes	Relation type
ENSG00000166452	Chromatin interaction
ENSG00000166444	Chromatin interaction

Extended variants
information (count: 38 )
Associated
traits (count: 10 )

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs10279	0.91[JPT][hapmap];0.83[EUR][1000 genomes]
rs10840135	1.00[YRI][hapmap]
rs10840139	0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11042104	0.95[YRI][hapmap]
rs11042105	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11042106	1.00[CEU][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11042107	0.94[ASN][1000 genomes]
rs11042108	0.93[CEU][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs11042114	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11042116	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11042118	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11042127	0.86[CEU][hapmap];0.90[JPT][hapmap];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11042133	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1109304	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12049908	1.00[CEU][hapmap];0.84[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12223690	0.93[CEU][hapmap];0.84[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs12418190	0.94[ASN][1000 genomes]
rs16906256	1.00[YRI][hapmap]
rs2163626	0.82[CEU][hapmap];0.87[EUR][1000 genomes]
rs2455601	0.92[CEU][hapmap];0.83[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs2568068	0.81[EUR][1000 genomes]
rs2568070	0.81[EUR][1000 genomes]
rs2568085	0.81[EUR][1000 genomes]
rs2568089	0.80[EUR][1000 genomes]
rs2568091	0.80[EUR][1000 genomes]
rs3751064	0.88[CEU][hapmap];0.86[JPT][hapmap];0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs3763913	0.86[CEU][hapmap];0.91[JPT][hapmap];0.87[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs3763914	0.86[CEU][hapmap];0.85[JPT][hapmap];0.89[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs56336128	0.94[ASN][1000 genomes]
rs56680262	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7104661	0.93[CEU][hapmap];0.84[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs72632952	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7938995	0.81[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2758256	chr11:8784813-9009573	Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription Active TSS Bivalent Enhancer ZNF genes & repeats 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	34 gene(s)	inside rSNPs	diseases
2	esv2759803	chr11:8784813-9009573	Flanking Active TSS Weak transcription Enhancers Strong transcription Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
3	nsv435923	chr11:8839325-9000602	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
4	nsv832062	chr11:8849295-9009472	Enhancers Weak transcription Genic enhancers Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Bivalent Enhancer 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	31 gene(s)	inside rSNPs	diseases
5	esv3413845	chr11:8887279-9285127	Enhancers Transcr. at gene 5' and 3' Weak transcription Flanking Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	47 gene(s)	inside rSNPs	diseases

mRNA abundance (count:10)

SNP	Gene	Cis/trans	Tissue	Source
rs11042115	TMEM9B-AS1	cis	Esophagus Mucosa	GTEx
rs11042115	TMEM9B-AS1	cis	Adipose Subcutaneous	GTEx
rs11042115	TMEM9B-AS1	cis	Muscle Skeletal	GTEx
rs11042115	TMEM9B-AS1	cis	lung	GTEx
rs11042115	TMEM9B-AS1	cis	Esophagus Muscularis	GTEx
rs11042115	TMEM9B-AS1	cis	Heart Left Ventricle	GTEx
rs11042115	TMEM9B-AS1	cis	Stomach	GTEx
rs11042115	TMEM9B-AS1	cis	Artery Tibial	GTEx
rs11042115	TMEM9B-AS1	cis	Thyroid	GTEx
rs11042115	TMEM9B-AS1	cis	Skin Sun Exposed Lower leg	GTEx

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:8925200-8927400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
2	chr11:8926000-8927200	Enhancers	Hela-S3	cervix
3	chr11:8926000-8927200	Weak transcription	NHDF-Ad	bronchial
4	chr11:8926000-8929400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr11:8926400-8927000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
6	chr11:8926600-8928400	Enhancers	A549	lung
7	chr11:8926600-8929000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
8	chr11:8926600-8929000	Enhancers	Muscle Satellite Cultured Cells	--
9	chr11:8926600-8929000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr11:8926600-8929000	Enhancers	HMEC	breast
11	chr11:8926600-8930000	Enhancers	NHEK	skin

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