Variant report

Variant	rs16970168
Chromosome Location	chr15:40294193-40294194
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 38 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs11070241	0.88[JPT][hapmap]
rs11633992	0.93[EUR][1000 genomes]
rs12050693	0.84[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12050884	1.00[CEU][hapmap];0.93[ASN][1000 genomes]
rs12591670	1.00[CEU][hapmap];0.88[JPT][hapmap];0.93[EUR][1000 genomes]
rs12901892	1.00[CEU][hapmap];0.94[GIH][hapmap];0.88[JPT][hapmap];0.83[TSI][hapmap];0.93[EUR][1000 genomes]
rs1436278	0.81[JPT][hapmap]
rs1689605	0.81[JPT][hapmap]
rs16970030	0.82[JPT][hapmap]
rs16970033	0.82[JPT][hapmap]
rs16970098	0.80[JPT][hapmap]
rs16970132	0.94[JPT][hapmap]
rs16970181	0.91[YRI][hapmap]
rs16970197	1.00[CEU][hapmap];0.92[YRI][hapmap];0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs16970202	0.85[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];0.81[LWK][hapmap];0.90[MEX][hapmap];0.83[TSI][hapmap];0.92[YRI][hapmap];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2196470	0.82[JPT][hapmap]
rs2279580	0.90[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.90[ASN][1000 genomes]
rs2291622	0.81[AMR][1000 genomes]
rs2291623	1.00[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];0.88[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.83[TSI][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2412460	0.81[ASN][1000 genomes]
rs2412473	0.95[MEX][hapmap]
rs2898974	0.85[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];0.85[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.90[LWK][hapmap];1.00[MEX][hapmap];0.83[TSI][hapmap];0.92[YRI][hapmap];0.84[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2898985	0.85[MEX][hapmap]
rs35390951	0.82[JPT][hapmap]
rs4432245	0.92[ASW][hapmap];0.85[MEX][hapmap];0.81[AMR][1000 genomes]
rs4566130	0.82[JPT][hapmap]
rs4594236	0.84[MEX][hapmap]
rs4924407	0.87[AMR][1000 genomes]
rs4924408	0.86[YRI][hapmap];0.87[AMR][1000 genomes]
rs503671	0.82[JPT][hapmap]
rs58367544	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs711906	0.85[MEX][hapmap];0.81[AMR][1000 genomes]
rs7165105	0.82[JPT][hapmap]
rs7178419	0.88[JPT][hapmap]
rs73390620	0.84[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs8034578	0.84[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][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	nsv530816	chr15:40003136-40586792	Bivalent Enhancer Strong transcription Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	63 gene(s)	inside rSNPs	diseases
2	nsv428635	chr15:40274500-40436293	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription Bivalent Enhancer Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:40228200-40323800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
2	chr15:40236600-40303000	Weak transcription	Small Intestine	intestine
3	chr15:40249000-40304800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
4	chr15:40250000-40294800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
5	chr15:40250200-40299600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
6	chr15:40260800-40303400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
7	chr15:40269600-40295600	Weak transcription	Fetal Heart	heart
8	chr15:40276400-40295600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
9	chr15:40277600-40294600	Strong transcription	iPS-20b Cell Line	embryonic stem cell
10	chr15:40277600-40303600	Strong transcription	HUES48 Cell Line	embryonic stem cell
11	chr15:40277600-40303800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
12	chr15:40277600-40304400	Strong transcription	HUES6 Cell Line	embryonic stem cell
13	chr15:40277800-40294400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
14	chr15:40277800-40298200	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
15	chr15:40277800-40303800	Strong transcription	HUES64 Cell Line	embryonic stem cell
16	chr15:40277800-40304400	Strong transcription	H1 Cell Line	embryonic stem cell
17	chr15:40277800-40304800	Strong transcription	Primary hematopoietic stem cells short term culture	blood
18	chr15:40277800-40305000	Strong transcription	iPS-18 Cell Line	embryonic stem cell
19	chr15:40277800-40305000	Strong transcription	Monocytes-CD14+_RO01746	blood
20	chr15:40277800-40305400	Strong transcription	Fetal Muscle Leg	muscle
21	chr15:40277800-40305600	Strong transcription	Primary monocytes fromperipheralblood	blood
22	chr15:40278000-40305400	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
23	chr15:40278800-40294600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
24	chr15:40279800-40294400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
25	chr15:40282800-40299000	Weak transcription	K562	blood
26	chr15:40284200-40294800	Weak transcription	Primary T helper cells PMA-I stimulated	--
27	chr15:40284400-40294600	Weak transcription	Hela-S3	cervix
28	chr15:40285200-40295400	Weak transcription	Psoas Muscle	Psoas
29	chr15:40285600-40295200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
30	chr15:40285800-40294800	Weak transcription	Primary B cells from peripheral blood	blood
31	chr15:40285800-40295400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
32	chr15:40286000-40294200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
33	chr15:40286000-40295000	Weak transcription	Colonic Mucosa	Colon
34	chr15:40286000-40295400	Weak transcription	Pancreas	Pancrea
35	chr15:40286200-40298000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
36	chr15:40286400-40295400	Weak transcription	Fetal Brain Male	brain
37	chr15:40286600-40294800	Weak transcription	Primary T cells fromperipheralblood	blood
38	chr15:40286800-40294400	Weak transcription	Fetal Thymus	thymus
39	chr15:40287200-40295400	Weak transcription	Brain Germinal Matrix	brain
40	chr15:40288200-40294400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
41	chr15:40288200-40294800	Weak transcription	Brain Angular Gyrus	brain
42	chr15:40288400-40294800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
43	chr15:40289200-40294400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
44	chr15:40289200-40294600	Weak transcription	Placenta Amnion	Placenta Amnion
45	chr15:40289200-40297000	Strong transcription	Primary hematopoietic stem cells	blood
46	chr15:40289400-40295400	Weak transcription	Fetal Kidney	kidney
47	chr15:40290000-40297400	Strong transcription	Fetal Lung	lung
48	chr15:40290200-40294600	Weak transcription	Primary T helper cells fromperipheralblood	blood
49	chr15:40291600-40295400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
50	chr15:40291600-40301200	Strong transcription	Primary B cells from cord blood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links