Variant report

Variant	rs1559962
Chromosome Location	chr2:145437996-145437997
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:145436622..145438184-chr2:145439926..145441504,2	K562	blood:

Extended variants
information (count: 70 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:67)

rs_ID	r²[population]
rs10200647	0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10203655	0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10205995	0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10432351	0.82[ASN][1000 genomes]
rs10496966	0.89[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs10928225	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10928226	0.81[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs10928227	1.00[CHB][hapmap];0.92[JPT][hapmap];0.83[ASN][1000 genomes]
rs11674690	0.81[ASN][1000 genomes]
rs11679253	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11883829	1.00[CHB][hapmap];0.92[JPT][hapmap]
rs11900456	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11902294	0.91[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap]
rs12104619	0.89[ASN][1000 genomes]
rs12471698	0.87[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs12478142	0.90[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs12611966	0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12623452	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12991932	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12997597	0.89[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs13003467	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13008442	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs13015001	1.00[CHB][hapmap];0.92[JPT][hapmap];0.89[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs13016064	0.90[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs13032840	0.91[ASN][1000 genomes]
rs13413613	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1351734	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1365902	0.87[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs1365905	0.89[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs1384779	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1384783	0.90[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs1427509	1.00[CHB][hapmap];0.93[JPT][hapmap];0.90[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs1483491	0.92[CHB][hapmap];0.92[JPT][hapmap];0.82[ASN][1000 genomes]
rs1483499	0.83[ASN][1000 genomes]
rs1529386	0.89[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs1529387	0.81[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs1559961	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1564697	1.00[CHB][hapmap];0.92[JPT][hapmap];0.80[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs1896453	0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1896454	0.85[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs1905347	0.82[ASN][1000 genomes]
rs1994155	0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2086748	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2195114	0.86[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs2195115	0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2254435	0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2381651	1.00[CHB][hapmap];0.93[JPT][hapmap];0.90[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs35099259	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3856364	0.82[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs4458150	0.85[ASN][1000 genomes]
rs4471836	0.87[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs4662231	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4662232	0.92[CHB][hapmap];0.92[JPT][hapmap];0.82[ASN][1000 genomes]
rs4662393	0.88[ASN][1000 genomes]
rs61440197	0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6707047	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6728198	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6745079	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs72991962	0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7575857	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7579453	0.88[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs7580571	0.80[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs900554	1.00[CHB][hapmap];0.92[JPT][hapmap];0.80[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs958500	0.90[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs958501	0.90[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs980772	1.00[CHB][hapmap];0.93[JPT][hapmap];0.89[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs990847	1.00[CHB][hapmap];0.93[JPT][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	nsv1002563	chr2:145182201-145863253	Enhancers Weak transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Active TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
2	nsv535957	chr2:145182201-145863253	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
3	nsv529501	chr2:145257682-145485605	Active TSS Enhancers Genic enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:145423000-145440600	Weak transcription	Primary hematopoietic stem cells	blood
2	chr2:145433000-145438800	Weak transcription	Primary monocytes fromperipheralblood	blood
3	chr2:145434000-145438600	Weak transcription	HMEC	breast
4	chr2:145434000-145439000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr2:145434200-145438600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
6	chr2:145434200-145439600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
7	chr2:145434400-145438400	Weak transcription	NHEK	skin
8	chr2:145436000-145438600	Enhancers	Primary B cells from cord blood	blood
9	chr2:145436000-145439400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
10	chr2:145436200-145438600	Enhancers	Pancreatic Islets	Pancreatic Islet
11	chr2:145436200-145439400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
12	chr2:145436600-145440800	Weak transcription	Fetal Kidney	kidney
13	chr2:145437000-145438000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
14	chr2:145437400-145438000	Enhancers	Primary B cells from peripheral blood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links