Variant report

Variant	rs1205108
Chromosome Location	chr6:38302280-38302281
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs1033480	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12191714	1.00[CHB][hapmap];0.85[YRI][hapmap]
rs12201631	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12202804	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12206324	1.00[CHB][hapmap];0.85[YRI][hapmap]
rs12206905	1.00[CHB][hapmap]
rs12212983	1.00[CHB][hapmap]
rs12215850	1.00[CHB][hapmap];0.85[YRI][hapmap]
rs1931758	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2179532	0.86[EUR][1000 genomes]
rs2179533	0.85[EUR][1000 genomes]
rs228179	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs228180	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs228186	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs228188	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2395698	0.85[EUR][1000 genomes]
rs2395699	0.85[EUR][1000 genomes]
rs28445226	1.00[CHB][hapmap]
rs4236058	1.00[CHB][hapmap]
rs4714147	0.88[ASN][1000 genomes]
rs4714148	1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs6922128	0.81[EUR][1000 genomes]
rs7763775	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.91[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs871183	1.00[CHB][hapmap];0.85[YRI][hapmap];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9349072	0.88[ASN][1000 genomes]
rs9394495	1.00[CHB][hapmap]
rs9470891	1.00[CHB][hapmap]

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	nsv1021991	chr6:37893949-38738720	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
2	nsv885817	chr6:38036420-39019503	Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Strong transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
3	nsv534620	chr6:38049585-38602064	Enhancers Strong transcription Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
4	nsv885818	chr6:38147745-38436317	Enhancers Weak transcription Strong transcription Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv885820	chr6:38166511-38468887	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:38278000-38310600	Weak transcription	Gastric	stomach
2	chr6:38278400-38305400	Weak transcription	Pancreas	Pancrea
3	chr6:38283000-38304000	Weak transcription	Primary T helper cells fromperipheralblood	blood
4	chr6:38285000-38327800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
5	chr6:38288000-38305600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr6:38291000-38305400	Weak transcription	Pancreatic Islets	Pancreatic Islet
7	chr6:38291400-38317600	Weak transcription	Rectal Smooth Muscle	rectum
8	chr6:38298600-38303600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
9	chr6:38299200-38313400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
10	chr6:38299600-38303000	Weak transcription	Skeletal Muscle Female	skeletal muscle
11	chr6:38299800-38317800	Weak transcription	Duodenum Smooth Muscle	Duodenum
12	chr6:38300200-38304800	Weak transcription	Fetal Brain Female	brain
13	chr6:38301600-38305800	Weak transcription	HSMM	muscle
14	chr6:38301600-38306800	Weak transcription	Duodenum Mucosa	Duodenum
15	chr6:38301600-38313400	Weak transcription	Psoas Muscle	Psoas
16	chr6:38301600-38315800	Weak transcription	Brain Hippocampus Middle	brain
17	chr6:38301600-38324600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
18	chr6:38301800-38310400	Weak transcription	Primary B cells from cord blood	blood
19	chr6:38301800-38313400	Weak transcription	Aorta	Aorta
20	chr6:38302000-38310400	Weak transcription	Primary T cells from cord blood	blood
21	chr6:38302000-38315800	Weak transcription	Primary T cells fromperipheralblood	blood
22	chr6:38302000-38318200	Weak transcription	Primary T helper cells PMA-I stimulated	--
23	chr6:38302200-38315800	Weak transcription	Brain Substantia Nigra	brain

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