Variant report

Variant	rs10759149
Chromosome Location	chr9:108671468-108671469
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:108669187..108678029-chr9:108711816..108723206,29	MCF-7	breast:

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

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs10115085	0.87[CEU][hapmap];0.81[EUR][1000 genomes]
rs10117602	0.87[CEU][hapmap];0.81[EUR][1000 genomes]
rs10120538	0.87[CEU][hapmap]
rs10759150	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10759151	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10759152	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10816353	0.91[ASN][1000 genomes]
rs10978330	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10978340	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10978359	0.81[ASN][1000 genomes]
rs16925032	0.86[CEU][hapmap];0.81[EUR][1000 genomes]
rs1961970	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1987136	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1987247	0.96[ASN][1000 genomes]
rs2417644	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2417658	0.97[ASN][1000 genomes]
rs2417659	0.91[ASN][1000 genomes]
rs2417660	0.87[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2900404	0.81[EUR][1000 genomes]
rs3884524	0.90[ASN][1000 genomes]
rs4598317	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4742967	0.81[EUR][1000 genomes]
rs4742969	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4742974	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4742975	0.86[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs6477482	0.81[EUR][1000 genomes]
rs7025973	0.87[CEU][hapmap];0.81[EUR][1000 genomes]
rs7030289	0.94[ASN][1000 genomes]
rs7040788	0.87[CEU][hapmap];0.81[EUR][1000 genomes]
rs7040794	0.81[EUR][1000 genomes]
rs7043384	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7044156	0.81[EUR][1000 genomes]
rs72732742	0.90[ASN][1000 genomes]
rs7851747	0.94[ASN][1000 genomes]
rs7856876	0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv893693	chr9:108427062-108683134	Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
2	nsv893694	chr9:108486533-108854018	Flanking Active TSS Enhancers ZNF genes & repeats Weak transcription Active TSS Strong transcription Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
3	nsv1041073	chr9:108535813-108731343	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
4	nsv1052684	chr9:108582944-108730280	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	nsv615140	chr9:108592589-108725567	Flanking Active TSS Weak transcription Enhancers Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
6	nsv831679	chr9:108603112-108785347	Enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:108664400-108672400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr9:108664400-108672600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr9:108664800-108673600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
4	chr9:108670400-108672400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
5	chr9:108670800-108672600	Weak transcription	A549	lung
6	chr9:108670800-108673600	Weak transcription	NHEK	skin
7	chr9:108670800-108673800	Weak transcription	HMEC	breast
8	chr9:108670800-108674000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
9	chr9:108671000-108671800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
10	chr9:108671400-108672400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr9:108671400-108672400	Weak transcription	Psoas Muscle	Psoas
12	chr9:108671400-108672600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links