Variant report

Variant	rs9450641
Chromosome Location	chr6:87949515-87949516
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 18 )
Associated
traits (count: 6 )

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

rs_ID	r²[population]
rs2240459	0.82[AMR][1000 genomes]
rs3812132	0.82[AMR][1000 genomes]
rs3857485	0.81[AMR][1000 genomes]
rs3857488	0.82[AMR][1000 genomes]
rs4707356	0.81[AMR][1000 genomes]
rs4707358	0.82[AMR][1000 genomes]
rs6454595	0.82[AMR][1000 genomes]
rs6454598	0.82[AMR][1000 genomes]
rs6454600	0.82[AMR][1000 genomes]
rs6917432	0.82[AMR][1000 genomes]
rs6925648	0.82[AMR][1000 genomes]
rs7755244	0.82[AMR][1000 genomes]
rs7758618	0.81[AMR][1000 genomes]
rs9344697	0.82[AMR][1000 genomes]
rs9351124	0.82[AMR][1000 genomes]
rs9353465	0.82[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2758067	chr6:87817883-87992957	Enhancers Bivalent Enhancer ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	esv2759453	chr6:87817883-87992957	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases

mRNA abundance (count:6)

SNP	Gene	Cis/trans	Tissue	Source
rs9450641	C6orf164	cis	Skin Sun Exposed Lower leg	GTEx
rs9450641	SLC35A1	Cis_1M	lymphoblastoid	RTeQTL
rs9450641	C6orf164	cis	Thyroid	GTEx
rs9450641	C6orf164	cis	Whole Blood	GTEx
rs9450641	C6orf163	Cis_1M	lymphoblastoid	RTeQTL
rs9450641	C6orf162	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:119 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:87884000-87964400	Weak transcription	NHEK	skin
2	chr6:87888200-87964200	Weak transcription	HSMMtube	muscle
3	chr6:87891000-87956000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
4	chr6:87905200-87950200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
5	chr6:87906200-87956200	Weak transcription	A549	lung
6	chr6:87906400-87964400	Weak transcription	NHLF	lung
7	chr6:87910600-87956000	Weak transcription	Skeletal Muscle Male	skeletal muscle
8	chr6:87922200-87956200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
9	chr6:87923200-87953600	Weak transcription	Stomach Mucosa	stomach
10	chr6:87923200-87956000	Weak transcription	Brain Hippocampus Middle	brain
11	chr6:87923400-87955600	Weak transcription	Sigmoid Colon	Sigmoid Colon
12	chr6:87923400-87956200	Weak transcription	Gastric	stomach
13	chr6:87923400-87956200	Weak transcription	Small Intestine	intestine
14	chr6:87923400-87969000	Weak transcription	Psoas Muscle	Psoas
15	chr6:87924000-87956200	Weak transcription	Brain Cingulate Gyrus	brain
16	chr6:87924400-87966000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
17	chr6:87924600-87956200	Weak transcription	Right Ventricle	heart
18	chr6:87928000-87956200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
19	chr6:87930600-87954000	Weak transcription	HMEC	breast
20	chr6:87931200-87952400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
21	chr6:87933200-87956200	Weak transcription	Brain Inferior Temporal Lobe	brain
22	chr6:87933400-87950200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
23	chr6:87933600-87949600	Weak transcription	Fetal Stomach	stomach
24	chr6:87933600-87951200	Weak transcription	Pancreas	Pancrea
25	chr6:87933600-87956200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
26	chr6:87933600-87956200	Weak transcription	Lung	lung
27	chr6:87933600-87956400	Weak transcription	Esophagus	oesophagus
28	chr6:87933800-87956200	Weak transcription	H9 Cell Line	embryonic stem cell
29	chr6:87933800-87956200	Weak transcription	Colonic Mucosa	Colon
30	chr6:87934000-87956200	Weak transcription	Left Ventricle	heart
31	chr6:87934000-87956400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
32	chr6:87934200-87954600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
33	chr6:87934400-87953400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
34	chr6:87934400-87955600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
35	chr6:87934600-87953600	Weak transcription	Colon Smooth Muscle	Colon
36	chr6:87934600-87964200	Weak transcription	Rectal Smooth Muscle	rectum
37	chr6:87934600-87964400	Weak transcription	Brain Angular Gyrus	brain
38	chr6:87934600-87967000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
39	chr6:87934800-87953600	Weak transcription	Brain Substantia Nigra	brain
40	chr6:87934800-87954800	Weak transcription	NH-A	brain
41	chr6:87934800-87956000	Weak transcription	Stomach Smooth Muscle	stomach
42	chr6:87934800-87956200	Weak transcription	Brain Anterior Caudate	brain
43	chr6:87934800-87956400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
44	chr6:87934800-87958600	Weak transcription	Placenta Amnion	Placenta Amnion
45	chr6:87934800-87964200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
46	chr6:87935000-87952000	Weak transcription	Skeletal Muscle Female	skeletal muscle
47	chr6:87935000-87956200	Weak transcription	HUVEC	blood vessel
48	chr6:87935200-87963400	Weak transcription	Hela-S3	cervix
49	chr6:87935200-87963600	Weak transcription	NHDF-Ad	bronchial
50	chr6:87935800-87956800	Weak transcription	Osteobl	bone

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