Variant report

Variant	rs10489181
Chromosome Location	chr1:169712597-169712598
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	chr1:169709712..169712944-chr1:169715789..169719606,5	MCF-7	breast:
2	chr1:169707608..169709249-chr1:169711620..169714505,2	MCF-7	breast:

Extended variants
information (count: 52 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs10489182	0.87[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs1076637	0.91[CHB][hapmap];0.81[ASN][1000 genomes]
rs10919228	0.93[AFR][1000 genomes];0.81[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs10919232	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10919233	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11584020	0.81[EUR][1000 genomes]
rs11588380	0.80[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12023614	0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12027035	0.91[CHB][hapmap]
rs12034880	0.82[ASN][1000 genomes]
rs12044082	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12072966	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs12087033	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs16862661	0.90[EUR][1000 genomes]
rs16862663	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16862672	0.86[EUR][1000 genomes]
rs2272818	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2298899	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs2420504	0.86[EUR][1000 genomes]
rs2420505	1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs28469136	0.95[AFR][1000 genomes];0.84[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs34990593	0.81[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs3917405	0.88[EUR][1000 genomes]
rs3917406	0.96[CHB][hapmap]
rs3917423	0.91[CHB][hapmap]
rs3917428	0.85[CEU][hapmap]
rs3917432	0.85[CEU][hapmap]
rs4265482	0.82[AFR][1000 genomes]
rs4656192	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4656699	0.86[EUR][1000 genomes]
rs4656700	0.86[EUR][1000 genomes]
rs4656718	1.00[CEU][hapmap]
rs4987301	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs4987306	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs4987314	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs4987320	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs4987322	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs4987328	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs5356	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs5368	1.00[CEU][hapmap];0.87[EUR][1000 genomes]
rs57793783	0.86[EUR][1000 genomes]
rs7418242	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs7520701	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7523319	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7523520	0.85[EUR][1000 genomes]
rs7543268	0.83[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs932307	0.95[CHB][hapmap]
rs964555	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs964556	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs964557	1.00[CEU][hapmap];0.85[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532586	chr1:169593222-169713184	Weak transcription Transcr. at gene 5' and 3' Strong transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
2	esv3451367	chr1:169630075-169976964	Strong transcription Flanking Active TSS Genic enhancers Enhancers Weak transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:169708800-169713800	Weak transcription	Left Ventricle	heart
2	chr1:169710400-169713800	Weak transcription	HUVEC	blood vessel
3	chr1:169710600-169713800	Weak transcription	Liver	Liver
4	chr1:169711000-169714200	Weak transcription	HUES48 Cell Line	embryonic stem cell
5	chr1:169711000-169714200	Weak transcription	HUES6 Cell Line	embryonic stem cell
6	chr1:169711000-169714200	Weak transcription	HUES64 Cell Line	embryonic stem cell
7	chr1:169711000-169714600	Weak transcription	H9 Cell Line	embryonic stem cell
8	chr1:169711200-169714600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
9	chr1:169711200-169714600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
10	chr1:169711400-169714400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
11	chr1:169711600-169713800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links