Variant report

Variant	rs1463727
Chromosome Location	chr3:151028998-151028999
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 41 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs1352887	0.85[CEU][hapmap]
rs1388626	0.84[CEU][hapmap]
rs1466684	0.84[CEU][hapmap]
rs1472121	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1491980	0.84[CEU][hapmap]
rs1491981	0.84[CEU][hapmap]
rs1873619	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2046934	0.85[CEU][hapmap]
rs2242353	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3821667	0.84[CEU][hapmap]
rs3971191	0.84[CEU][hapmap]
rs4146770	0.95[CEU][hapmap];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4679792	0.93[ASN][1000 genomes]
rs4679802	0.84[CEU][hapmap]
rs4680355	0.93[ASN][1000 genomes]
rs4680374	0.85[CEU][hapmap]
rs58792455	0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6440732	0.84[CEU][hapmap]
rs6440735	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6767266	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6769397	0.84[CEU][hapmap]
rs6790748	0.85[CEU][hapmap]
rs6803224	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6803841	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6809699	0.84[CEU][hapmap]
rs7621876	0.84[CEU][hapmap]
rs7622010	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7623356	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7633362	0.85[CEU][hapmap]
rs937124	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9820422	0.84[CEU][hapmap]
rs9845034	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9863821	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9863983	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9864095	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9864216	0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9865758	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9877389	0.84[CEU][hapmap]

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	nsv460894	chr3:150770614-151095093	Enhancers Flanking Bivalent TSS/Enh Weak transcription Strong transcription Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
2	nsv592045	chr3:150770614-151095093	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
3	esv2754555	chr3:150968302-151054302	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:151002600-151044000	Weak transcription	Primary hematopoietic stem cells	blood
2	chr3:151023200-151034600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr3:151024400-151029000	Genic enhancers	HMEC	breast
4	chr3:151024600-151029600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
5	chr3:151024600-151032600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
6	chr3:151024600-151032800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
7	chr3:151024800-151030200	Genic enhancers	NHEK	skin
8	chr3:151025200-151030600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
9	chr3:151025200-151030800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
10	chr3:151025200-151030800	Genic enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
11	chr3:151025200-151032400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
12	chr3:151025400-151030600	Weak transcription	HUES64 Cell Line	embryonic stem cell
13	chr3:151025600-151030800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
14	chr3:151025600-151032400	Weak transcription	H9 Cell Line	embryonic stem cell
15	chr3:151025800-151030600	Weak transcription	H1 Cell Line	embryonic stem cell
16	chr3:151025800-151032200	Weak transcription	Esophagus	oesophagus
17	chr3:151026000-151030600	Weak transcription	HUES6 Cell Line	embryonic stem cell
18	chr3:151026200-151030800	Weak transcription	HUES48 Cell Line	embryonic stem cell
19	chr3:151026600-151030600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
20	chr3:151027200-151030200	Genic enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
21	chr3:151027600-151030000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
22	chr3:151027600-151032200	Weak transcription	Hela-S3	cervix
23	chr3:151027600-151034400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
24	chr3:151028000-151032400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
25	chr3:151028200-151029000	Transcr. at gene 5' and 3'	Foreskin Keratinocyte Primary Cells skin02	Skin
26	chr3:151028600-151031200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links