Variant report

Variant	rs17071952
Chromosome Location	chr6:143006957-143006958
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 12 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs12191635	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12195351	1.00[ASN][1000 genomes]
rs12195495	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35024907	0.98[EUR][1000 genomes]
rs57559259	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs61290118	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62429468	1.00[ASN][1000 genomes]
rs62429474	1.00[ASN][1000 genomes]
rs6933793	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949088	chr6:142561402-143128849	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv830827	chr6:142840734-143015005	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv830828	chr6:142970134-143116517	Enhancers Genic enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:142998200-143008200	Weak transcription	Fetal Stomach	stomach
2	chr6:142999400-143007800	Enhancers	Fetal Brain Male	brain
3	chr6:143001800-143013600	Weak transcription	NH-A	brain
4	chr6:143002400-143007000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
5	chr6:143002600-143013800	Weak transcription	Primary T cells fromperipheralblood	blood
6	chr6:143004400-143007400	Enhancers	Primary T cells from cord blood	blood
7	chr6:143005000-143008400	Enhancers	Primary T helper cells PMA-I stimulated	--
8	chr6:143005200-143014200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
9	chr6:143005800-143007400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
10	chr6:143006000-143008000	Enhancers	Primary T helper cells fromperipheralblood	blood
11	chr6:143006000-143008000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
12	chr6:143006000-143008600	Enhancers	Primary T helper naive cells fromperipheralblood	blood
13	chr6:143006000-143009000	Enhancers	Fetal Lung	lung
14	chr6:143006200-143007000	Weak transcription	Fetal Brain Female	brain
15	chr6:143006200-143008000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
16	chr6:143006400-143008600	Enhancers	Primary T helper naive cells from peripheral blood	blood
17	chr6:143006800-143007200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

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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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