Variant report

Variant	rs16925292
Chromosome Location	chr9:7077514-7077515
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs1407856	1.00[CEU][hapmap];0.84[JPT][hapmap];0.80[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs16925220	0.93[CEU][hapmap];0.80[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs16925247	0.93[CEU][hapmap];0.89[EUR][1000 genomes]
rs16925266	1.00[CEU][hapmap];0.93[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs16925288	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4740869	0.93[CEU][hapmap];0.93[CHB][hapmap];0.91[JPT][hapmap];0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4742299	1.00[CEU][hapmap];0.86[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs55787411	0.82[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs56348300	0.88[EUR][1000 genomes]
rs61075062	0.85[EUR][1000 genomes]
rs62533860	0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs62533862	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs62533897	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62533899	0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs62533900	0.82[AMR][1000 genomes]
rs62534433	0.83[EUR][1000 genomes]
rs62534436	0.80[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs62536961	0.80[AMR][1000 genomes]
rs62536962	0.90[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs7019027	0.93[CEU][hapmap];0.88[EUR][1000 genomes]
rs73639964	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs73639965	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7866711	1.00[CEU][hapmap];0.91[JPT][hapmap];0.82[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	nsv466117	chr9:7030268-7084558	Weak transcription Strong transcription ZNF genes & repeats Enhancers Active TSS Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	nsv613258	chr9:7030268-7084558	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	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
6	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
7	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
8	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

No data

Chromatin state (count:101 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:7009200-7077600	Weak transcription	Osteobl	bone
2	chr9:7012200-7111200	Weak transcription	Colonic Mucosa	Colon
3	chr9:7028800-7086400	Weak transcription	Right Ventricle	heart
4	chr9:7029000-7081200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
5	chr9:7034000-7103600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
6	chr9:7043400-7103600	Weak transcription	Rectal Smooth Muscle	rectum
7	chr9:7050000-7082200	Weak transcription	Brain Inferior Temporal Lobe	brain
8	chr9:7051600-7103200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
9	chr9:7052600-7086400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
10	chr9:7053000-7086600	Weak transcription	Fetal Intestine Large	intestine
11	chr9:7053200-7084400	Weak transcription	Brain Hippocampus Middle	brain
12	chr9:7053200-7099200	Weak transcription	HUES6 Cell Line	embryonic stem cell
13	chr9:7058400-7088600	Weak transcription	Cortex derived primary cultured neurospheres	brain
14	chr9:7058600-7085000	Weak transcription	Brain Anterior Caudate	brain
15	chr9:7059400-7082000	Weak transcription	Fetal Stomach	stomach
16	chr9:7059600-7078800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
17	chr9:7061200-7104600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
18	chr9:7061600-7103600	Weak transcription	Spleen	Spleen
19	chr9:7062800-7096400	Weak transcription	Fetal Intestine Small	intestine
20	chr9:7065600-7077800	Weak transcription	NH-A	brain
21	chr9:7066200-7096200	Weak transcription	Stomach Mucosa	stomach
22	chr9:7067000-7088000	Weak transcription	H9 Cell Line	embryonic stem cell
23	chr9:7067200-7082600	Strong transcription	Primary B cells from peripheral blood	blood
24	chr9:7067200-7103600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
25	chr9:7068400-7103600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
26	chr9:7071200-7087400	Strong transcription	Primary B cells from cord blood	blood
27	chr9:7072000-7082200	Weak transcription	Small Intestine	intestine
28	chr9:7072000-7088600	Strong transcription	Primary T cells from cord blood	blood
29	chr9:7072200-7080800	Weak transcription	Fetal Heart	heart
30	chr9:7073600-7099200	Weak transcription	NHEK	skin
31	chr9:7074600-7079400	Strong transcription	Monocytes-CD14+_RO01746	blood
32	chr9:7074600-7089800	Weak transcription	Fetal Muscle Trunk	muscle
33	chr9:7074800-7078400	Strong transcription	GM12878-XiMat	blood
34	chr9:7074800-7078800	Strong transcription	Primary T helper cells PMA-I stimulated	--
35	chr9:7074800-7079200	Strong transcription	Primary T helper cells fromperipheralblood	blood
36	chr9:7074800-7079400	Strong transcription	Primary monocytes fromperipheralblood	blood
37	chr9:7075000-7078000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
38	chr9:7075000-7081800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
39	chr9:7075000-7097800	Weak transcription	Muscle Satellite Cultured Cells	--
40	chr9:7075200-7077800	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
41	chr9:7075200-7078200	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
42	chr9:7075200-7082800	Strong transcription	Primary T cells fromperipheralblood	blood
43	chr9:7075400-7078000	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
44	chr9:7075400-7080800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
45	chr9:7075400-7086400	Weak transcription	H1 Cell Line	embryonic stem cell
46	chr9:7075400-7088400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
47	chr9:7075600-7077800	Strong transcription	Sigmoid Colon	Sigmoid Colon
48	chr9:7075600-7082600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
49	chr9:7075600-7105800	Weak transcription	NHLF	lung
50	chr9:7075800-7078000	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links