Variant report

Variant	rs6477154
Chromosome Location	chr9:7096729-7096730
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs10491780	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10815514	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10976037	0.82[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4742310	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6477153	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7042418	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs717381	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7849812	0.80[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7861286	0.81[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs912204	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv892166	chr9:6602821-7222495	Strong transcription Enhancers Weak transcription Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	71 gene(s)	inside rSNPs	diseases
2	nsv1023906	chr9:6731786-7372132	Weak transcription ZNF genes & repeats Enhancers Bivalent Enhancer Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
3	nsv613259	chr9:7032776-7541338	Enhancers Strong transcription Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
4	nsv1015874	chr9:7048807-7434890	Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
5	nsv539971	chr9:7048807-7434890	Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Genic enhancers Active TSS 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 target site	3 gene(s)	inside rSNPs	diseases
6	nsv869932	chr9:7068359-7133384	Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	nsv892189	chr9:7091968-7150997	Strong transcription Enhancers Weak transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
8	nsv892190	chr9:7094860-7186074	Strong transcription Weak transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:92 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:7012200-7111200	Weak transcription	Colonic Mucosa	Colon
2	chr9:7034000-7103600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
3	chr9:7043400-7103600	Weak transcription	Rectal Smooth Muscle	rectum
4	chr9:7051600-7103200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
5	chr9:7053200-7099200	Weak transcription	HUES6 Cell Line	embryonic stem cell
6	chr9:7061200-7104600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
7	chr9:7061600-7103600	Weak transcription	Spleen	Spleen
8	chr9:7067200-7103600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr9:7068400-7103600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr9:7073600-7099200	Weak transcription	NHEK	skin
11	chr9:7075000-7097800	Weak transcription	Muscle Satellite Cultured Cells	--
12	chr9:7075600-7105800	Weak transcription	NHLF	lung
13	chr9:7076600-7103600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
14	chr9:7077000-7098000	Weak transcription	Colon Smooth Muscle	Colon
15	chr9:7077800-7103200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
16	chr9:7077800-7103200	Weak transcription	Stomach Smooth Muscle	stomach
17	chr9:7077800-7103600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
18	chr9:7077800-7103600	Weak transcription	Brain Angular Gyrus	brain
19	chr9:7077800-7103600	Weak transcription	HMEC	breast
20	chr9:7077800-7103600	Weak transcription	K562	blood
21	chr9:7077800-7103800	Weak transcription	HSMM	muscle
22	chr9:7078000-7103600	Weak transcription	Dnd41	blood
23	chr9:7078200-7103800	Weak transcription	Rectal Mucosa Donor 29	rectum
24	chr9:7079400-7103200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
25	chr9:7079600-7103600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
26	chr9:7081600-7097000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
27	chr9:7082800-7103600	Weak transcription	Pancreas	Pancrea
28	chr9:7085400-7103600	Weak transcription	Brain Anterior Caudate	brain
29	chr9:7086600-7105600	Weak transcription	Placenta Amnion	Placenta Amnion
30	chr9:7087000-7096800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
31	chr9:7087000-7097000	Weak transcription	Esophagus	oesophagus
32	chr9:7087000-7097800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
33	chr9:7087000-7099000	Weak transcription	Primary monocytes fromperipheralblood	blood
34	chr9:7087000-7099400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
35	chr9:7087000-7099400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
36	chr9:7087000-7099400	Weak transcription	Adipose Nuclei	Adipose
37	chr9:7087000-7099400	Weak transcription	Liver	Liver
38	chr9:7087000-7099400	Weak transcription	Duodenum Mucosa	Duodenum
39	chr9:7087000-7099600	Weak transcription	Rectal Mucosa Donor 31	rectum
40	chr9:7087000-7103400	Weak transcription	Fetal Stomach	stomach
41	chr9:7087000-7103400	Weak transcription	Sigmoid Colon	Sigmoid Colon
42	chr9:7087000-7103600	Weak transcription	Aorta	Aorta
43	chr9:7087000-7103600	Weak transcription	Brain Inferior Temporal Lobe	brain
44	chr9:7087000-7103600	Weak transcription	Fetal Intestine Large	intestine
45	chr9:7087000-7103600	Weak transcription	Gastric	stomach
46	chr9:7087200-7096800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
47	chr9:7087200-7097000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
48	chr9:7087200-7097600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
49	chr9:7087200-7098000	Weak transcription	Hela-S3	cervix
50	chr9:7087200-7103600	Weak transcription	HepG2	liver

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