Variant report

Variant	rs177356
Chromosome Location	chr6:25058216-25058217
allele	A/G
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:15)

rs_ID	r²[population]
rs1172085	0.80[YRI][hapmap]
rs303878	1.00[CEU][hapmap];0.92[CHB][hapmap];0.99[EUR][1000 genomes]
rs304256	0.85[AFR][1000 genomes];0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs304257	0.85[AFR][1000 genomes];0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs304258	0.85[AFR][1000 genomes];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs304259	0.87[AFR][1000 genomes];0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs458664	0.88[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs466882	0.88[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs466944	0.88[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs513585	0.88[AFR][1000 genomes];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs516361	0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs549256	0.86[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs550176	0.88[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs608874	0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs609408	0.86[AFR][1000 genomes];0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][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	nsv1022966	chr6:24763776-25154212	Flanking Active TSS Weak transcription Active TSS Enhancers Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
2	nsv538160	chr6:24763776-25154212	Active TSS Strong transcription Flanking Active TSS Enhancers Bivalent Enhancer Weak transcription Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
3	nsv1023989	chr6:24930362-25285679	Weak transcription Active TSS Enhancers Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases
4	nsv830610	chr6:24951741-25124239	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
5	nsv830611	chr6:25039374-25199112	Flanking Active TSS Enhancers Strong transcription Weak transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:39 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:25046000-25062400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr6:25049600-25059200	Enhancers	Primary B cells from peripheral blood	blood
3	chr6:25050600-25059200	Enhancers	Primary hematopoietic stem cells	blood
4	chr6:25051200-25061600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
5	chr6:25054200-25061400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr6:25054200-25061400	Weak transcription	Lung	lung
7	chr6:25055000-25060400	Weak transcription	Adipose Nuclei	Adipose
8	chr6:25055000-25061400	Weak transcription	Cortex derived primary cultured neurospheres	brain
9	chr6:25055400-25061200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
10	chr6:25055400-25064200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
11	chr6:25056600-25061400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
12	chr6:25056600-25061600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
13	chr6:25056800-25059200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
14	chr6:25056800-25059200	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
15	chr6:25056800-25059200	Enhancers	Primary T helper cells PMA-I stimulated	--
16	chr6:25056800-25059600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
17	chr6:25057000-25059400	Enhancers	Primary B cells from cord blood	blood
18	chr6:25057200-25058800	Weak transcription	GM12878-XiMat	blood
19	chr6:25057600-25059400	Enhancers	Primary hematopoietic stem cells short term culture	blood
20	chr6:25057600-25061400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
21	chr6:25057600-25080400	Weak transcription	Thymus	Thymus
22	chr6:25057800-25058800	Weak transcription	Primary monocytes fromperipheralblood	blood
23	chr6:25057800-25058800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
24	chr6:25057800-25058800	Weak transcription	Monocytes-CD14+_RO01746	blood
25	chr6:25057800-25061000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
26	chr6:25057800-25061400	Weak transcription	Fetal Muscle Leg	muscle
27	chr6:25057800-25061600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
28	chr6:25057800-25061600	Weak transcription	Fetal Thymus	thymus
29	chr6:25057800-25062800	Weak transcription	Fetal Muscle Trunk	muscle
30	chr6:25057800-25062800	Weak transcription	Placenta	Placenta
31	chr6:25058000-25060600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
32	chr6:25058000-25061200	Weak transcription	NHDF-Ad	bronchial
33	chr6:25058000-25061400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
34	chr6:25058000-25061600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
35	chr6:25058000-25061600	Weak transcription	Fetal Stomach	stomach
36	chr6:25058200-25058600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
37	chr6:25058200-25058600	Weak transcription	Primary T helper cells fromperipheralblood	blood
38	chr6:25058200-25058800	Weak transcription	Primary T cells fromperipheralblood	blood
39	chr6:25058200-25058800	Weak transcription	Primary T helper naive cells from peripheral blood	blood

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