Variant report

Variant	rs17631643
Chromosome Location	chr8:6464058-6464059
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 12 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:1)

rs_ID	r²[population]
rs2980666	0.91[GIH][hapmap]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1021175	chr8:5965453-6880364	Enhancers Flanking Active TSS Strong transcription Weak transcription Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
2	nsv1027682	chr8:6018123-6920312	Enhancers Flanking Active TSS Active TSS Weak transcription Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
3	esv3506199	chr8:6116693-6536592	Weak transcription Enhancers Genic enhancers Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	11 gene(s)	inside rSNPs	diseases
4	esv3506200	chr8:6116693-6536592	Active TSS Strong transcription Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	11 gene(s)	inside rSNPs	diseases
5	nsv1015981	chr8:6286575-6578450	Weak transcription Strong transcription Enhancers Genic enhancers Active TSS ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	17 gene(s)	inside rSNPs	diseases
6	nsv1027313	chr8:6286575-6920312	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
7	nsv1021684	chr8:6350091-6809455	Weak transcription Strong transcription Transcr. at gene 5' and 3' Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
8	esv2422383	chr8:6362389-6781593	Enhancers Bivalent Enhancer Weak transcription Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
9	nsv610004	chr8:6402366-6772913	Active TSS Weak transcription Bivalent Enhancer Flanking Active TSS Enhancers Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
10	nsv1029241	chr8:6411300-6761720	Weak transcription Strong transcription Flanking Active TSS Active TSS Enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
11	nsv933075	chr8:6456475-7366650	Enhancers Flanking Active TSS Weak transcription Active TSS Genic enhancers Strong transcription ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	72 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs17631643	GALNT9	trans	lymphoblastoid	seeQTL

Chromatin state (count:42 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:6364200-6478200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
2	chr8:6442600-6479000	Weak transcription	Primary T cells fromperipheralblood	blood
3	chr8:6450200-6478400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
4	chr8:6453200-6467600	Weak transcription	Stomach Smooth Muscle	stomach
5	chr8:6455600-6468400	Weak transcription	Aorta	Aorta
6	chr8:6456800-6470000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
7	chr8:6457200-6479200	Weak transcription	Brain Germinal Matrix	brain
8	chr8:6457400-6479200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
9	chr8:6457600-6467400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
10	chr8:6457800-6479200	Weak transcription	Brain Inferior Temporal Lobe	brain
11	chr8:6458000-6472200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
12	chr8:6458000-6472600	Weak transcription	Gastric	stomach
13	chr8:6458000-6498400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
14	chr8:6458200-6466400	Weak transcription	NH-A	brain
15	chr8:6458600-6479800	Weak transcription	Skeletal Muscle Female	skeletal muscle
16	chr8:6460000-6465600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
17	chr8:6460000-6468000	Weak transcription	Skeletal Muscle Male	skeletal muscle
18	chr8:6460000-6472800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
19	chr8:6460000-6473800	Weak transcription	Right Atrium	heart
20	chr8:6460000-6479000	Weak transcription	Pancreas	Pancrea
21	chr8:6460200-6479000	Weak transcription	Lung	lung
22	chr8:6460600-6469800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
23	chr8:6461400-6479800	Weak transcription	Rectal Smooth Muscle	rectum
24	chr8:6461800-6465600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
25	chr8:6461800-6467600	Weak transcription	Fetal Lung	lung
26	chr8:6462600-6465000	ZNF genes & repeats	Dnd41	blood
27	chr8:6463000-6464200	Enhancers	Muscle Satellite Cultured Cells	--
28	chr8:6463000-6466400	Weak transcription	NHDF-Ad	bronchial
29	chr8:6463000-6468800	Weak transcription	Placenta	Placenta
30	chr8:6463000-6474000	Weak transcription	HSMMtube	muscle
31	chr8:6463600-6464400	ZNF genes & repeats	Primary T cells from cord blood	blood
32	chr8:6463600-6467400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
33	chr8:6463800-6464400	ZNF genes & repeats	Foreskin Keratinocyte Primary Cells skin03	Skin
34	chr8:6463800-6465000	ZNF genes & repeats	ES-UCSF4 Cell Line	embryonic stem cell
35	chr8:6463800-6467800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
36	chr8:6464000-6464200	ZNF genes & repeats	H9 Cell Line	embryonic stem cell
37	chr8:6464000-6464400	ZNF genes & repeats	H1 Derived Mesenchymal Stem Cells	ES cell derived
38	chr8:6464000-6464400	ZNF genes & repeats	Breast Myoepithelial Primary Cells	Breast
39	chr8:6464000-6464400	ZNF genes & repeats	Thymus	Thymus
40	chr8:6464000-6464400	Genic enhancers	Spleen	Spleen
41	chr8:6464000-6464400	ZNF genes & repeats	NHEK	skin
42	chr8:6464000-6465600	ZNF genes & repeats	Fetal Thymus	thymus

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