Variant report

Variant	rs10828176
Chromosome Location	chr10:21311248-21311249
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:21303248..21306188-chr10:21309523..21312450,2	K562	blood:
2	chr10:21308867..21311253-chr10:21335354..21337034,2	K562	blood:
3	chr10:21308174..21311563-chr10:21311855..21315770,3	K562	blood:
4	chr10:21310378..21312533-chr10:21324924..21327503,2	K562	blood:
5	chr10:21310043..21312694-chr10:21366087..21368569,2	MCF-7	breast:

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs10764300	0.94[ASN][1000 genomes]
rs10764301	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10828173	0.82[ASW][hapmap];0.90[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.91[GIH][hapmap];0.95[JPT][hapmap];0.83[TSI][hapmap];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10828174	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10828175	0.95[CHB][hapmap];1.00[CHD][hapmap];0.82[GIH][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs11012479	1.00[CHB][hapmap];0.95[JPT][hapmap];0.90[ASN][1000 genomes]
rs11012483	0.90[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11012485	0.90[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11012486	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs11012489	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11012491	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs11012492	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11816130	0.90[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11817951	0.90[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12220884	0.92[ASN][1000 genomes]
rs16921415	0.90[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];0.91[GIH][hapmap];0.95[JPT][hapmap];0.83[TSI][hapmap];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3858200	0.91[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs45503098	0.84[EUR][1000 genomes]
rs55647529	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs55687305	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs56070435	0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs58448284	0.90[ASN][1000 genomes]
rs6482158	1.00[ASW][hapmap];0.90[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];0.89[LWK][hapmap];0.89[MEX][hapmap];0.83[TSI][hapmap];0.94[YRI][hapmap];0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs661924	0.86[CHB][hapmap];0.86[CHD][hapmap];0.95[JPT][hapmap];0.81[ASN][1000 genomes]
rs7073838	0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7079324	0.90[CEU][hapmap];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7079790	1.00[CHB][hapmap];0.95[JPT][hapmap];0.85[YRI][hapmap];0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs72790563	0.81[EUR][1000 genomes]
rs7896773	0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7904906	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7920067	0.90[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]

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	nsv530148	chr10:21065080-21724565	Weak transcription Enhancers Strong transcription Bivalent/Poised TSS Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	23 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	chr10:21290400-21319800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
2	chr10:21305200-21315600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr10:21305200-21319800	Weak transcription	Brain Hippocampus Middle	brain
4	chr10:21305400-21311400	Weak transcription	Fetal Lung	lung
5	chr10:21306400-21311800	Weak transcription	Primary neutrophils fromperipheralblood	blood
6	chr10:21309000-21318600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
7	chr10:21309600-21316400	Weak transcription	Spleen	Spleen
8	chr10:21311000-21311400	Enhancers	Liver	Liver
9	chr10:21311000-21312400	Enhancers	Primary monocytes fromperipheralblood	blood
10	chr10:21311200-21311400	Enhancers	Brain Substantia Nigra	brain
11	chr10:21311200-21312400	Enhancers	Breast Myoepithelial Primary Cells	Breast
12	chr10:21311200-21312400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
13	chr10:21311200-21318000	Weak transcription	Lung	lung
14	chr10:21311200-21322200	Weak transcription	Brain Anterior Caudate	brain

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