Variant report

Variant	rs17499309
Chromosome Location	chr11:83961039-83961040
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs10501554	0.84[EUR][1000 genomes]
rs10501561	1.00[ASN][1000 genomes]
rs10898221	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11233916	0.84[EUR][1000 genomes]
rs11233921	0.84[EUR][1000 genomes]
rs11233925	0.84[EUR][1000 genomes]
rs11233926	0.84[EUR][1000 genomes]
rs11233929	0.81[EUR][1000 genomes]
rs11233938	0.84[EUR][1000 genomes]
rs11233966	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11233968	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11233969	1.00[ASN][1000 genomes]
rs11233970	1.00[ASN][1000 genomes]
rs12274848	1.00[ASN][1000 genomes]
rs12283368	1.00[ASN][1000 genomes]
rs12360734	1.00[YRI][hapmap];0.87[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[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	nsv1039924	chr11:83662904-83993497	Enhancers Active TSS Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
2	nsv541102	chr11:83662904-83993497	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
3	nsv948410	chr11:83918339-84812001	Bivalent/Poised TSS Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
4	nsv415	chr11:83924941-83969603	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	n/a

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:83945400-83961200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
2	chr11:83958200-83961200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
3	chr11:83958600-83961200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr11:83959200-83963200	Weak transcription	Brain Germinal Matrix	brain
5	chr11:83959400-83961800	Weak transcription	Brain Substantia Nigra	brain
6	chr11:83959600-83965000	Weak transcription	Brain Hippocampus Middle	brain
7	chr11:83959800-83961400	Enhancers	Aorta	Aorta
8	chr11:83960200-83961400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
9	chr11:83960200-83961600	Enhancers	GM12878-XiMat	blood
10	chr11:83960200-83962400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
11	chr11:83960400-83961200	Strong transcription	Brain Cingulate Gyrus	brain
12	chr11:83960400-83961400	Strong transcription	Brain Inferior Temporal Lobe	brain
13	chr11:83960400-83962200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
14	chr11:83960800-83961400	Enhancers	Liver	Liver
15	chr11:83960800-83961400	Strong transcription	Brain Angular Gyrus	brain
16	chr11:83960800-83961800	Genic enhancers	Brain Anterior Caudate	brain
17	chr11:83961000-83961200	Enhancers	Ovary	ovary
18	chr11:83961000-83961600	Enhancers	Right Atrium	heart

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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