Variant report

Variant	rs1873978
Chromosome Location	chr12:44821961-44821962
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	chr12:44816718..44819049-chr12:44821321..44822850,2	MCF-7	breast:

Extended variants
information (count: 88 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:87)

rs_ID	r²[population]
rs10506245	1.00[JPT][hapmap]
rs10880632	0.82[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11182486	1.00[ASN][1000 genomes]
rs11182490	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11182493	0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11182495	0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11182496	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11182497	0.94[ASN][1000 genomes]
rs11182501	0.94[ASN][1000 genomes]
rs11182517	0.87[ASN][1000 genomes]
rs11611818	0.94[ASN][1000 genomes]
rs11612521	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12297907	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12301564	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12308701	0.94[ASN][1000 genomes]
rs12308760	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12308816	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12310262	0.94[ASN][1000 genomes]
rs12311228	1.00[ASN][1000 genomes]
rs12317228	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12318553	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12319211	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12319354	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1353143	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1353145	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1353146	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1353147	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1493755	0.94[ASN][1000 genomes]
rs1493758	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs1527315	1.00[JPT][hapmap]
rs1643432	0.85[CEU][hapmap]
rs17094634	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17094695	0.87[ASN][1000 genomes]
rs17121316	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17121322	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1716605	1.00[JPT][hapmap]
rs1716609	1.00[JPT][hapmap]
rs1726884	1.00[JPT][hapmap]
rs1726889	1.00[JPT][hapmap]
rs1798023	1.00[JPT][hapmap]
rs1798032	1.00[JPT][hapmap]
rs1873980	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1873981	0.94[ASN][1000 genomes]
rs4639992	1.00[JPT][hapmap]
rs4768559	1.00[JPT][hapmap]
rs55781129	0.87[ASN][1000 genomes]
rs55962853	0.87[ASN][1000 genomes]
rs56020032	0.87[ASN][1000 genomes]
rs56115011	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56318423	0.87[ASN][1000 genomes]
rs59255697	0.87[ASN][1000 genomes]
rs60837979	0.87[ASN][1000 genomes]
rs68107418	0.94[ASN][1000 genomes]
rs7132743	0.94[ASN][1000 genomes]
rs7134756	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7299010	0.89[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs7302676	1.00[CHB][hapmap];0.87[ASN][1000 genomes]
rs73094334	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7309948	0.81[ASN][1000 genomes]
rs7314412	1.00[JPT][hapmap]
rs74085067	0.87[ASN][1000 genomes]
rs74085071	0.87[ASN][1000 genomes]
rs74085073	0.87[ASN][1000 genomes]
rs74085078	0.87[ASN][1000 genomes]
rs751921	1.00[ASN][1000 genomes]
rs7953681	1.00[CHB][hapmap];0.87[ASN][1000 genomes]
rs7957832	0.87[ASN][1000 genomes]
rs7958300	0.87[ASN][1000 genomes]
rs7958770	0.87[ASN][1000 genomes]
rs7960681	0.87[ASN][1000 genomes]
rs7962332	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7964751	0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7965110	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7965383	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7969400	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7969428	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7969466	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7969614	0.94[ASN][1000 genomes]
rs7970601	0.87[ASN][1000 genomes]
rs7971520	0.87[ASN][1000 genomes]
rs7972882	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7978776	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7979642	0.87[ASN][1000 genomes]
rs840773	1.00[JPT][hapmap]
rs840774	1.00[JPT][hapmap]
rs859016	1.00[JPT][hapmap]
rs863482	1.00[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	nsv1049818	chr12:44486312-45133783	Enhancers ZNF genes & repeats Weak transcription Active TSS Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:44813400-44822400	Weak transcription	H1 Cell Line	embryonic stem cell
2	chr12:44816800-44822000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
3	chr12:44817000-44822400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr12:44821600-44823800	Enhancers	iPS-15b Cell Line	embryonic stem cell
5	chr12:44821600-44824600	Enhancers	iPS-20b Cell Line	embryonic stem cell
6	chr12:44821800-44822000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
7	chr12:44821800-44824000	Enhancers	H9 Cell Line	embryonic stem cell

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