Variant report

Variant	rs1645690
Chromosome Location	chr19:41596133-41596134
allele	A/G
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:27)

rs_ID	r²[population]
rs1645696	0.85[EUR][1000 genomes]
rs1645709	1.00[CEU][hapmap]
rs1645712	1.00[CEU][hapmap]
rs1709081	1.00[CEU][hapmap];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1709082	1.00[CEU][hapmap];0.89[CHB][hapmap];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1709083	0.87[EUR][1000 genomes]
rs1709084	0.85[EUR][1000 genomes]
rs1709085	0.85[EUR][1000 genomes]
rs1709112	1.00[CEU][hapmap]
rs1709114	1.00[CEU][hapmap]
rs1709115	1.00[CEU][hapmap]
rs17713907	1.00[CEU][hapmap]
rs2458638	1.00[CEU][hapmap]
rs2548792	1.00[CEU][hapmap]
rs305987	0.81[AMR][1000 genomes]
rs305988	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs305989	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs305990	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs305991	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs305992	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs305993	0.84[EUR][1000 genomes]
rs305995	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs305996	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs305997	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs305999	0.84[EUR][1000 genomes]
rs8192786	0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9917112	1.00[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1066637	chr19:41309211-41597896	Weak transcription Enhancers Genic enhancers Active TSS Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
2	nsv1065684	chr19:41516389-41644542	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
3	nsv2491	chr19:41560948-41604222	Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Bivalent/Poised TSS Enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	nsv978819	chr19:41589889-41601315	Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers Bivalent/Poised TSS Weak transcription Flanking Active TSS	TF binding region CpG island	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:36 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:41595200-41596600	Bivalent/Poised TSS	ES-I3 Cell Line	embryonic stem cell
2	chr19:41595400-41596400	Bivalent/Poised TSS	H1 Cell Line	embryonic stem cell
3	chr19:41595400-41596400	Bivalent/Poised TSS	HUES48 Cell Line	embryonic stem cell
4	chr19:41595400-41596400	Bivalent/Poised TSS	HUES6 Cell Line	embryonic stem cell
5	chr19:41595400-41596400	Bivalent Enhancer	Primary T killer naive cells fromperipheralblood	blood
6	chr19:41595400-41596600	Bivalent/Poised TSS	H9 Cell Line	embryonic stem cell
7	chr19:41595400-41596600	Bivalent/Poised TSS	HUES64 Cell Line	embryonic stem cell
8	chr19:41595600-41596200	Bivalent/Poised TSS	iPS-20b Cell Line	embryonic stem cell
9	chr19:41595600-41596400	Bivalent/Poised TSS	iPS DF 6.9 Cell Line	embryonic stem cell
10	chr19:41595600-41596400	Flanking Bivalent TSS/Enh	ES-UCSF4 Cell Line	embryonic stem cell
11	chr19:41595600-41596800	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell
12	chr19:41595800-41596200	Bivalent Enhancer	Primary T cells fromperipheralblood	blood
13	chr19:41595800-41596200	Bivalent Enhancer	Foreskin Keratinocyte Primary Cells skin03	Skin
14	chr19:41595800-41596200	Enhancers	Liver	Liver
15	chr19:41595800-41596200	Bivalent Enhancer	Placenta	Placenta
16	chr19:41595800-41596200	Enhancers	Ovary	ovary
17	chr19:41595800-41596200	Bivalent Enhancer	Placenta Amnion	Placenta Amnion
18	chr19:41595800-41596400	Bivalent/Poised TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
19	chr19:41595800-41596400	Bivalent Enhancer	Primary Natural Killer cells fromperipheralblood	blood
20	chr19:41595800-41596600	Bivalent/Poised TSS	iPS-18 Cell Line	embryonic stem cell
21	chr19:41595800-41596600	Flanking Bivalent TSS/Enh	iPS DF 19.11 Cell Line	embryonic stem cell
22	chr19:41596000-41596200	Bivalent Enhancer	H1 Derived Mesenchymal Stem Cells	ES cell derived
23	chr19:41596000-41596200	Flanking Bivalent TSS/Enh	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
24	chr19:41596000-41596200	Bivalent Enhancer	Primary hematopoietic stem cells G-CSF-mobilized Female	--
25	chr19:41596000-41596200	Bivalent Enhancer	Foreskin Fibroblast Primary Cells skin01	Skin
26	chr19:41596000-41596200	Bivalent Enhancer	Foreskin Keratinocyte Primary Cells skin02	Skin
27	chr19:41596000-41596200	Bivalent Enhancer	Foreskin Melanocyte Primary Cells skin03	Skin
28	chr19:41596000-41596200	Bivalent Enhancer	Esophagus	oesophagus
29	chr19:41596000-41596200	Bivalent Enhancer	Fetal Intestine Large	intestine
30	chr19:41596000-41596200	Bivalent Enhancer	Fetal Muscle Trunk	muscle
31	chr19:41596000-41596200	Bivalent Enhancer	Fetal Muscle Leg	muscle
32	chr19:41596000-41596200	Bivalent Enhancer	Fetal Stomach	stomach
33	chr19:41596000-41596200	Bivalent Enhancer	Lung	lung
34	chr19:41596000-41596200	Flanking Bivalent TSS/Enh	A549	lung
35	chr19:41596000-41596400	Bivalent/Poised TSS	ES-WA7 Cell Line	embryonic stem cell
36	chr19:41596000-41596400	Flanking Active TSS	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links