Variant report

Variant	rs73040440
Chromosome Location	chr3:24620602-24620603
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:24619219..24620800-chr3:24620874..24623733,3	K562	blood:
2	chr3:24619509..24621615-chr3:24625396..24628167,4	K562	blood:

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs10490837	0.94[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs11715809	0.94[AFR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13318800	0.81[EUR][1000 genomes]
rs17014900	0.85[EUR][1000 genomes]
rs17014902	0.85[EUR][1000 genomes]
rs1992040	0.81[EUR][1000 genomes]
rs2043579	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2117873	0.81[EUR][1000 genomes]
rs2117874	0.82[EUR][1000 genomes]
rs2196435	1.00[AFR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2196438	0.81[EUR][1000 genomes]
rs28562279	0.88[EUR][1000 genomes]
rs55720954	0.94[AFR][1000 genomes]
rs56135387	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56268655	0.93[EUR][1000 genomes]
rs56281969	1.00[AFR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6769209	0.81[EUR][1000 genomes]
rs6771818	0.81[EUR][1000 genomes]
rs73036489	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs73036499	1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs73036501	1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs73038411	0.80[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs73038427	0.93[EUR][1000 genomes]
rs73040431	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73040438	0.94[AFR][1000 genomes];0.91[EUR][1000 genomes]
rs73040465	0.94[AFR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73040478	0.94[AFR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73040479	0.94[AFR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7647700	0.81[EUR][1000 genomes]
rs9823545	0.81[EUR][1000 genomes]
rs9838616	0.81[EUR][1000 genomes]
rs9838720	0.81[EUR][1000 genomes]
rs9843609	0.81[EUR][1000 genomes]
rs9844544	0.81[EUR][1000 genomes]
rs9850781	0.81[EUR][1000 genomes]
rs9853927	0.81[EUR][1000 genomes]
rs9861129	0.81[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv834641	chr3:24465862-24633738	Enhancers Bivalent Enhancer Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	19 gene(s)	inside rSNPs	diseases
2	nsv834642	chr3:24475558-24640593	Enhancers Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	19 gene(s)	inside rSNPs	diseases
3	nsv999384	chr3:24525345-24656873	Enhancers Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:24617800-24623400	Weak transcription	Primary hematopoietic stem cells	blood
2	chr3:24618000-24629600	Weak transcription	Right Atrium	heart
3	chr3:24619800-24621000	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
4	chr3:24620200-24621200	Enhancers	iPS-18 Cell Line	embryonic stem cell
5	chr3:24620400-24621000	Enhancers	H1 Cell Line	embryonic stem cell
6	chr3:24620400-24621000	Enhancers	Primary hematopoietic stem cells short term culture	blood
7	chr3:24620400-24621200	Enhancers	ES-I3 Cell Line	embryonic stem cell
8	chr3:24620400-24621200	Enhancers	HUES48 Cell Line	embryonic stem cell
9	chr3:24620400-24621200	Enhancers	HUES64 Cell Line	embryonic stem cell
10	chr3:24620400-24621200	Enhancers	iPS-20b Cell Line	embryonic stem cell
11	chr3:24620400-24621200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
12	chr3:24620400-24621200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
13	chr3:24620400-24621400	Enhancers	iPS-15b Cell Line	embryonic stem cell
14	chr3:24620400-24621400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
15	chr3:24620400-24621600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
16	chr3:24620600-24621000	Enhancers	Breast Myoepithelial Primary Cells	Breast
17	chr3:24620600-24621000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
18	chr3:24620600-24621000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
19	chr3:24620600-24621000	Enhancers	Esophagus	oesophagus
20	chr3:24620600-24621000	Flanking Active TSS	K562	blood
21	chr3:24620600-24621200	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
22	chr3:24620600-24621200	Enhancers	Placenta Amnion	Placenta Amnion
23	chr3:24620600-24621200	Enhancers	NHEK	skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links