Variant report

Variant	rs12550816
Chromosome Location	chr8:98938852-98938853
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 34 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs10091886	0.82[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1020654	0.86[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1020655	0.96[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11996155	0.80[AFR][1000 genomes];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12548243	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1378123	0.83[YRI][hapmap];0.87[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1378124	0.88[ASW][hapmap];0.88[LWK][hapmap];0.80[TSI][hapmap];0.83[YRI][hapmap];0.87[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1378125	0.88[ASW][hapmap];0.84[LWK][hapmap];0.80[TSI][hapmap];0.87[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1378126	0.83[YRI][hapmap];0.85[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1454714	0.88[ASW][hapmap];0.88[LWK][hapmap];0.80[TSI][hapmap];0.83[YRI][hapmap];0.86[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1840370	0.83[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1840371	0.83[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1840372	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1968721	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2444899	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2444900	0.85[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs2444902	0.97[ASN][1000 genomes]
rs2512072	0.82[YRI][hapmap];0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2513835	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2513836	0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2513837	0.81[EUR][1000 genomes]
rs2513838	0.94[ASW][hapmap];0.85[LWK][hapmap];0.80[TSI][hapmap];0.82[YRI][hapmap];0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2513839	1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4298468	0.88[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4469426	0.86[YRI][hapmap];0.88[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4512352	0.86[YRI][hapmap];0.88[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs5012370	0.85[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6468603	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs897190	0.97[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	nsv1032904	chr8:98756076-99476925	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	72 gene(s)	inside rSNPs	diseases
2	nsv539687	chr8:98756076-99476925	Flanking Bivalent TSS/Enh Enhancers Flanking Active TSS Active TSS Weak transcription Bivalent/Poised TSS Strong transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	72 gene(s)	inside rSNPs	diseases
3	nsv1028055	chr8:98780445-98977746	Weak transcription Genic enhancers Strong transcription Bivalent Enhancer Enhancers Flanking Active TSS Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
4	nsv891214	chr8:98849303-98990399	Enhancers Active TSS ZNF genes & repeats Weak transcription Flanking Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
5	nsv891215	chr8:98910287-98980663	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:60 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:98929200-98944800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr8:98930800-98950000	Weak transcription	Right Ventricle	heart
3	chr8:98931000-98940800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr8:98931200-98944200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr8:98931800-98943200	Enhancers	Fetal Muscle Leg	muscle
6	chr8:98932000-98940800	Weak transcription	Ovary	ovary
7	chr8:98932200-98943400	Weak transcription	Pancreas	Pancrea
8	chr8:98932400-98940600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
9	chr8:98934200-98943400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
10	chr8:98935200-98941200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
11	chr8:98935200-98941200	Weak transcription	Placenta Amnion	Placenta Amnion
12	chr8:98935200-98944400	Weak transcription	Skeletal Muscle Female	skeletal muscle
13	chr8:98935400-98941200	Weak transcription	H1 Cell Line	embryonic stem cell
14	chr8:98935400-98941200	Weak transcription	Brain Anterior Caudate	brain
15	chr8:98935800-98941000	Weak transcription	Brain Cingulate Gyrus	brain
16	chr8:98937000-98939000	Enhancers	Stomach Mucosa	stomach
17	chr8:98937000-98940800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
18	chr8:98937200-98939000	Enhancers	Cortex derived primary cultured neurospheres	brain
19	chr8:98937200-98939400	Weak transcription	Fetal Muscle Trunk	muscle
20	chr8:98937400-98939200	Enhancers	Liver	Liver
21	chr8:98937600-98939000	Enhancers	Fetal Stomach	stomach
22	chr8:98937600-98939400	Enhancers	NHDF-Ad	bronchial
23	chr8:98937800-98939000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
24	chr8:98937800-98939000	Enhancers	Fetal Intestine Small	intestine
25	chr8:98937800-98939200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
26	chr8:98937800-98939200	Enhancers	Fetal Intestine Large	intestine
27	chr8:98937800-98939400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
28	chr8:98938000-98939200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
29	chr8:98938200-98939000	Enhancers	Right Atrium	heart
30	chr8:98938200-98939200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
31	chr8:98938200-98944400	Weak transcription	Stomach Smooth Muscle	stomach
32	chr8:98938200-98956200	Weak transcription	Rectal Mucosa Donor 29	rectum
33	chr8:98938200-98969200	Weak transcription	Colonic Mucosa	Colon
34	chr8:98938400-98939000	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
35	chr8:98938400-98940400	Weak transcription	NHEK	skin
36	chr8:98938400-98941200	Weak transcription	HSMMtube	muscle
37	chr8:98938400-98943200	Weak transcription	Duodenum Mucosa	Duodenum
38	chr8:98938400-98943600	Weak transcription	Fetal Kidney	kidney
39	chr8:98938600-98939000	Enhancers	Placenta	Placenta
40	chr8:98938600-98939200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
41	chr8:98938600-98940000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
42	chr8:98938600-98940800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
43	chr8:98938600-98940800	Weak transcription	Brain Inferior Temporal Lobe	brain
44	chr8:98938600-98940800	Weak transcription	Brain Substantia Nigra	brain
45	chr8:98938600-98941000	Weak transcription	Muscle Satellite Cultured Cells	--
46	chr8:98938600-98941200	Weak transcription	Brain Angular Gyrus	brain
47	chr8:98938600-98941200	Weak transcription	NH-A	brain
48	chr8:98938600-98943000	Weak transcription	Fetal Heart	heart
49	chr8:98938600-98943400	Weak transcription	Sigmoid Colon	Sigmoid Colon
50	chr8:98938600-98944400	Weak transcription	H9 Cell Line	embryonic stem cell

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