Variant report

Variant	rs17138405
Chromosome Location	chr7:17945029-17945030
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 42 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs10228026	1.00[YRI][hapmap];0.94[AFR][1000 genomes]
rs10229298	0.91[YRI][hapmap]
rs10230644	1.00[YRI][hapmap];0.88[AFR][1000 genomes]
rs10231119	0.85[AFR][1000 genomes]
rs10231226	1.00[YRI][hapmap];0.88[AFR][1000 genomes]
rs10231837	0.92[YRI][hapmap]
rs10234457	0.91[YRI][hapmap];0.94[AFR][1000 genomes]
rs10237285	0.91[YRI][hapmap]
rs10252726	0.82[AFR][1000 genomes]
rs10258047	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10269984	1.00[AMR][1000 genomes]
rs10270181	0.92[YRI][hapmap];0.83[AFR][1000 genomes]
rs10274155	1.00[YRI][hapmap]
rs10278523	0.91[YRI][hapmap]
rs10280913	0.92[YRI][hapmap];0.83[AFR][1000 genomes]
rs10282332	0.82[AFR][1000 genomes]
rs10282571	1.00[YRI][hapmap];0.88[AFR][1000 genomes]
rs11975603	1.00[YRI][hapmap];0.84[AFR][1000 genomes]
rs17138311	0.91[YRI][hapmap]
rs17138375	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17138395	0.91[YRI][hapmap];0.91[AFR][1000 genomes]
rs17138418	0.84[YRI][hapmap];1.00[AMR][1000 genomes]
rs17138450	0.93[YRI][hapmap];0.82[AFR][1000 genomes]
rs1880456	0.84[YRI][hapmap]
rs28476778	0.88[AFR][1000 genomes]
rs28637602	1.00[AMR][1000 genomes]
rs28862893	1.00[AFR][1000 genomes]
rs73310107	0.97[AFR][1000 genomes]
rs73310176	1.00[AFR][1000 genomes]
rs73312112	1.00[AFR][1000 genomes]
rs73680509	1.00[AMR][1000 genomes]

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	nsv1021524	chr7:17251148-17963307	Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
2	nsv533938	chr7:17254118-18040301	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
3	nsv1024398	chr7:17630148-18545073	Strong transcription Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	20 gene(s)	inside rSNPs	diseases
4	nsv538764	chr7:17630148-18545073	Strong transcription Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	20 gene(s)	inside rSNPs	diseases
5	nsv830913	chr7:17848480-18034218	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
6	nsv1026629	chr7:17862477-18362404	Enhancers Weak transcription Strong transcription Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	15 gene(s)	inside rSNPs	diseases
7	nsv1025023	chr7:17865796-18357630	Enhancers Active TSS Strong transcription Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	15 gene(s)	inside rSNPs	diseases
8	nsv1030201	chr7:17898410-18491985	Enhancers Strong transcription Active TSS Bivalent/Poised TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	16 gene(s)	inside rSNPs	diseases
9	nsv887808	chr7:17920613-18150005	Enhancers Flanking Active TSS Weak transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
10	nsv1018517	chr7:17926468-18127372	Weak transcription Flanking Bivalent TSS/Enh Strong transcription Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
11	nsv606357	chr7:17938491-18375245	Active TSS Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	15 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:62 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:17900400-17956600	Weak transcription	A549	lung
2	chr7:17901400-17946200	Weak transcription	NHLF	lung
3	chr7:17903600-17945400	Weak transcription	Aorta	Aorta
4	chr7:17903600-17953000	Weak transcription	Thymus	Thymus
5	chr7:17903800-17949000	Weak transcription	NHEK	skin
6	chr7:17907200-17954800	Weak transcription	Spleen	Spleen
7	chr7:17911400-17977400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
8	chr7:17913000-17955800	Weak transcription	K562	blood
9	chr7:17918200-17948000	Weak transcription	GM12878-XiMat	blood
10	chr7:17927200-17955000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
11	chr7:17928200-17946800	Weak transcription	Hela-S3	cervix
12	chr7:17929200-17951400	Weak transcription	Fetal Intestine Large	intestine
13	chr7:17929200-17952200	Weak transcription	Fetal Muscle Leg	muscle
14	chr7:17929800-17946600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
15	chr7:17929800-17948000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
16	chr7:17929800-17949200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
17	chr7:17929800-17951600	Weak transcription	Fetal Thymus	thymus
18	chr7:17929800-17954000	Weak transcription	Rectal Mucosa Donor 31	rectum
19	chr7:17930000-17948200	Weak transcription	Muscle Satellite Cultured Cells	--
20	chr7:17930000-17949200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
21	chr7:17930000-17950200	Weak transcription	Primary hematopoietic stem cells	blood
22	chr7:17930000-17950200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
23	chr7:17930000-17952400	Weak transcription	Primary B cells from peripheral blood	blood
24	chr7:17930200-17946800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
25	chr7:17930200-17950200	Weak transcription	NHDF-Ad	bronchial
26	chr7:17930200-17951800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
27	chr7:17930200-17954200	Weak transcription	Placenta	Placenta
28	chr7:17932200-17946200	Weak transcription	Primary monocytes fromperipheralblood	blood
29	chr7:17934800-17949400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
30	chr7:17936400-17947400	Weak transcription	Primary B cells from cord blood	blood
31	chr7:17938200-17951800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
32	chr7:17938800-17952800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
33	chr7:17940200-17950800	Weak transcription	Fetal Stomach	stomach
34	chr7:17940400-17947200	Weak transcription	Psoas Muscle	Psoas
35	chr7:17941000-17951600	Weak transcription	Right Ventricle	heart
36	chr7:17941000-17952400	Weak transcription	Ovary	ovary
37	chr7:17941200-17952400	Weak transcription	Gastric	stomach
38	chr7:17941400-17949200	Weak transcription	Fetal Intestine Small	intestine
39	chr7:17941400-17951000	Weak transcription	Monocytes-CD14+_RO01746	blood
40	chr7:17941400-17958400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
41	chr7:17942600-17945400	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
42	chr7:17942600-17949600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
43	chr7:17942800-17951800	Weak transcription	Left Ventricle	heart
44	chr7:17942800-17954800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
45	chr7:17942800-17954800	Weak transcription	Pancreas	Pancrea
46	chr7:17943200-17946600	Weak transcription	Small Intestine	intestine
47	chr7:17943200-17952400	Weak transcription	Sigmoid Colon	Sigmoid Colon
48	chr7:17943400-17946800	Weak transcription	HepG2	liver
49	chr7:17943400-17947600	Weak transcription	HMEC	breast
50	chr7:17943400-17951400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links