Variant report

Variant	rs10238554
Chromosome Location	chr7:120567281-120567282
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr7:119588397..119591015-chr7:120565946..120567892,2	K562	blood:
2	chr7:120564595..120568185-chr7:120568681..120572482,3	K562	blood:
3	chr7:120566255..120567870-chr7:120568141..120570899,2	MCF-7	breast:

Extended variants
information (count: 76 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:75)

rs_ID	r²[population]
rs10225453	0.87[JPT][hapmap]
rs10252911	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10257297	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10257475	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10261886	1.00[CEU][hapmap];0.85[CHB][hapmap];0.90[ASN][1000 genomes]
rs10266755	0.84[CHB][hapmap]
rs10272601	1.00[CEU][hapmap];0.85[CHB][hapmap];0.95[JPT][hapmap];0.93[YRI][hapmap];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10274689	0.82[CHB][hapmap];0.87[JPT][hapmap]
rs10282072	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10953922	0.87[ASN][1000 genomes]
rs12154992	1.00[CEU][hapmap]
rs13438082	0.90[ASN][1000 genomes]
rs1557857	0.89[ASN][1000 genomes]
rs17132716	1.00[CEU][hapmap];0.84[CHB][hapmap]
rs17142995	0.82[CHB][hapmap];0.86[JPT][hapmap]
rs17143055	1.00[CEU][hapmap];0.85[CHB][hapmap];0.90[ASN][1000 genomes]
rs1859316	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1859318	0.89[ASN][1000 genomes]
rs1859319	0.82[CHB][hapmap];0.90[JPT][hapmap];0.89[ASN][1000 genomes]
rs2040762	0.83[ASN][1000 genomes]
rs2074577	0.85[CHB][hapmap]
rs2107276	1.00[CHB][hapmap];0.95[JPT][hapmap];0.88[ASN][1000 genomes]
rs2189452	0.80[CHB][hapmap]
rs2244863	0.85[CHB][hapmap]
rs2248890	0.80[CHB][hapmap];0.81[JPT][hapmap]
rs2524951	0.84[ASN][1000 genomes]
rs2525705	0.89[ASN][1000 genomes]
rs2525708	0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2525709	0.87[ASN][1000 genomes]
rs2525743	0.87[ASN][1000 genomes]
rs2721341	0.90[CHB][hapmap];0.90[JPT][hapmap];0.87[ASN][1000 genomes]
rs2721347	0.82[CHB][hapmap];0.82[JPT][hapmap]
rs2721354	0.90[CHB][hapmap];0.85[JPT][hapmap];0.83[ASN][1000 genomes]
rs2721363	0.85[CHB][hapmap]
rs2721364	0.83[ASN][1000 genomes]
rs3757556	1.00[CEU][hapmap];0.85[CHB][hapmap];0.95[JPT][hapmap];0.90[YRI][hapmap];0.84[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3757557	1.00[CEU][hapmap];0.85[CHB][hapmap]
rs3779386	1.00[CHB][hapmap];0.95[JPT][hapmap];0.83[ASN][1000 genomes]
rs3779387	1.00[CEU][hapmap];0.81[CHB][hapmap]
rs3779388	0.81[CHB][hapmap]
rs3779389	0.80[CHB][hapmap]
rs3823859	0.90[CHB][hapmap];0.86[JPT][hapmap]
rs3823861	0.85[CHB][hapmap];0.82[JPT][hapmap]
rs4141301	1.00[CEU][hapmap];0.83[ASN][1000 genomes]
rs4141309	1.00[CEU][hapmap];0.85[CHB][hapmap]
rs41624	0.85[CHB][hapmap];0.82[JPT][hapmap]
rs41629	0.85[CHB][hapmap];0.82[JPT][hapmap]
rs41632	0.85[CHB][hapmap];0.82[JPT][hapmap]
rs41688	0.80[CHB][hapmap]
rs41690	0.85[CHB][hapmap]
rs4461820	1.00[CEU][hapmap];0.85[CHB][hapmap];0.90[ASN][1000 genomes]
rs59189516	0.83[ASN][1000 genomes]
rs59790582	0.81[ASN][1000 genomes]
rs60612048	0.83[ASN][1000 genomes]
rs61452531	0.83[ASN][1000 genomes]
rs6466759	0.87[JPT][hapmap]
rs6466760	0.87[JPT][hapmap]
rs6466761	0.85[CHB][hapmap];0.86[JPT][hapmap]
rs6466762	0.90[CHB][hapmap];0.86[JPT][hapmap]
rs6953454	0.87[JPT][hapmap]
rs6959328	0.86[JPT][hapmap]
rs6964344	1.00[CEU][hapmap];0.85[CHB][hapmap];0.95[JPT][hapmap];0.93[YRI][hapmap];0.82[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6971854	1.00[CHB][hapmap];0.95[JPT][hapmap];0.83[ASN][1000 genomes]
rs6975372	1.00[CEU][hapmap];0.85[CHB][hapmap];0.90[ASN][1000 genomes]
rs6979247	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.83[YRI][hapmap];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs714259	0.90[CHB][hapmap];0.81[JPT][hapmap]
rs732568	0.85[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs73427805	0.83[ASN][1000 genomes]
rs73429803	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs745167	0.87[ASN][1000 genomes]
rs7776721	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.84[YRI][hapmap];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7781985	0.90[CHB][hapmap];0.86[JPT][hapmap]
rs7800318	0.82[ASN][1000 genomes]
rs9649429	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs996903	0.85[CHB][hapmap];0.86[JPT][hapmap]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv1818826	chr7:120405335-120622836	Strong transcription Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	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	chr7:120566400-120567800	Enhancers	iPS-15b Cell Line	embryonic stem cell
2	chr7:120566600-120568000	Enhancers	HUES48 Cell Line	embryonic stem cell
3	chr7:120566600-120568000	Enhancers	iPS-18 Cell Line	embryonic stem cell
4	chr7:120566800-120568200	Enhancers	iPS-20b Cell Line	embryonic stem cell
5	chr7:120567000-120567600	Enhancers	HUVEC	blood vessel
6	chr7:120567000-120567800	Enhancers	H1 Cell Line	embryonic stem cell
7	chr7:120567000-120567800	Enhancers	H9 Cell Line	embryonic stem cell
8	chr7:120567000-120568200	Enhancers	HUES64 Cell Line	embryonic stem cell
9	chr7:120567200-120567400	Flanking Active TSS	ES-I3 Cell Line	embryonic stem cell
10	chr7:120567200-120567400	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
11	chr7:120567200-120567600	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
12	chr7:120567200-120567600	Flanking Active TSS	HUES6 Cell Line	embryonic stem cell
13	chr7:120567200-120567600	Enhancers	Breast Myoepithelial Primary Cells	Breast
14	chr7:120567200-120568200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links