Variant report

Variant	rs11846416
Chromosome Location	chr14:38041895-38041896
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr14:37923826..37925404-chr14:38041177..38044020,2	MCF-7	breast:
2	chr14:38041373..38043920-chr14:38178840..38181066,3	MCF-7	breast:
3	chr14:37720026..37722656-chr14:38040517..38043861,3	MCF-7	breast:

Extended variants
information (count: 99 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:95)

rs_ID	r²[population]
rs1008236	0.82[CEU][hapmap];0.86[CHB][hapmap];0.82[ASN][1000 genomes]
rs1011818	0.95[CEU][hapmap];0.86[CHB][hapmap];0.86[JPT][hapmap]
rs10133438	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10143976	0.82[CEU][hapmap];0.86[CHB][hapmap];0.86[JPT][hapmap]
rs10144334	1.00[ASN][1000 genomes]
rs10145379	0.86[CHB][hapmap];0.85[ASN][1000 genomes]
rs10145473	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs10149161	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs10151200	1.00[CHB][hapmap];0.87[JPT][hapmap];0.87[ASN][1000 genomes]
rs10400689	0.86[CHB][hapmap]
rs1057536	0.82[CEU][hapmap];0.86[CHB][hapmap];0.85[ASN][1000 genomes]
rs11156961	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs11156962	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1154688	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1155456	0.95[CEU][hapmap];0.86[CHB][hapmap];0.86[JPT][hapmap]
rs1158700	0.91[ASN][1000 genomes]
rs1158701	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs1159151	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11623989	0.90[CEU][hapmap];0.86[CHB][hapmap];0.86[JPT][hapmap]
rs11627807	0.82[ASN][1000 genomes]
rs1169873	0.95[CEU][hapmap];0.86[CHB][hapmap];0.86[JPT][hapmap]
rs1169875	0.91[CEU][hapmap]
rs12147939	0.86[CHB][hapmap];0.87[JPT][hapmap]
rs12881012	0.95[CEU][hapmap];0.87[JPT][hapmap];0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12884204	0.95[CEU][hapmap];0.86[CHB][hapmap]
rs12893503	0.95[CEU][hapmap];0.86[CHB][hapmap]
rs12894536	0.95[CEU][hapmap];0.86[CHB][hapmap];0.86[JPT][hapmap]
rs12896336	0.91[CEU][hapmap];0.86[CHB][hapmap];0.81[JPT][hapmap]
rs12896760	0.95[CEU][hapmap];0.86[CHB][hapmap];0.86[JPT][hapmap]
rs1473715	0.95[CEU][hapmap];0.86[CHB][hapmap];0.86[JPT][hapmap];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1474886	0.91[CEU][hapmap];0.86[CHB][hapmap];0.81[JPT][hapmap]
rs1547008	0.95[CEU][hapmap];0.86[CHB][hapmap];0.86[JPT][hapmap]
rs1547009	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17179078	0.95[CEU][hapmap];0.86[CHB][hapmap];0.86[JPT][hapmap]
rs17768249	0.95[CEU][hapmap];0.86[CHB][hapmap];0.86[JPT][hapmap]
rs1814005	0.95[CEU][hapmap];0.86[CHB][hapmap];0.86[JPT][hapmap];0.80[EUR][1000 genomes]
rs1884798	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1884803	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs1950824	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs1950826	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs1955934	0.85[CEU][hapmap];0.86[CHB][hapmap];0.86[JPT][hapmap]
rs1955943	0.86[CHB][hapmap];0.86[JPT][hapmap]
rs1955949	0.95[CEU][hapmap]
rs1956427	0.95[CEU][hapmap];0.86[CHB][hapmap];0.86[JPT][hapmap]
rs1956429	0.82[ASN][1000 genomes]
rs1956433	0.95[CEU][hapmap];0.86[JPT][hapmap]
rs1956435	0.95[CEU][hapmap];0.86[CHB][hapmap];0.86[JPT][hapmap]
rs1956437	0.95[CEU][hapmap];0.86[CHB][hapmap];0.86[JPT][hapmap]
rs1956438	0.88[ASN][1000 genomes]
rs1956439	0.88[ASN][1000 genomes]
rs1956440	0.91[ASN][1000 genomes]
rs1956442	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1956443	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1980675	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs1989084	0.95[CEU][hapmap];0.86[CHB][hapmap];0.86[JPT][hapmap]
rs2006729	0.95[CEU][hapmap]
rs2038438	0.83[ASN][1000 genomes]
rs2146133	0.95[CEU][hapmap];0.86[CHB][hapmap]
rs2180609	0.95[CEU][hapmap];0.86[CHB][hapmap];0.86[JPT][hapmap];0.82[EUR][1000 genomes]
rs2415404	0.95[CEU][hapmap];0.86[CHB][hapmap];0.86[JPT][hapmap]
rs28397975	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4898640	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4900918	0.95[CEU][hapmap];0.86[CHB][hapmap];0.84[JPT][hapmap]
rs4900945	0.95[CEU][hapmap];0.86[CHB][hapmap];0.85[JPT][hapmap];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4900966	0.91[ASN][1000 genomes]
rs4900967	0.91[ASN][1000 genomes]
rs4900969	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs4900971	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4900972	0.91[ASN][1000 genomes]
rs4901012	0.90[ASN][1000 genomes]
rs6571812	0.95[CEU][hapmap];0.86[CHB][hapmap];0.86[JPT][hapmap]
rs6571814	0.95[CEU][hapmap];0.86[CHB][hapmap];0.86[JPT][hapmap]
rs7143956	0.91[ASN][1000 genomes]
rs7144658	0.86[CHB][hapmap];0.85[ASN][1000 genomes]
rs7145671	0.95[CEU][hapmap];0.85[CHB][hapmap]
rs7146299	0.95[CEU][hapmap];0.86[CHB][hapmap];0.86[JPT][hapmap]
rs7146958	1.00[ASN][1000 genomes]
rs7147379	0.82[CEU][hapmap];0.86[CHB][hapmap];0.82[ASN][1000 genomes]
rs7148547	0.91[CEU][hapmap];0.86[CHB][hapmap];0.86[JPT][hapmap]
rs7153426	0.95[CEU][hapmap];0.86[CHB][hapmap];0.86[JPT][hapmap]
rs7153867	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7159456	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs7160774	0.90[ASN][1000 genomes]
rs7161228	0.88[CHB][hapmap];0.93[JPT][hapmap];0.90[ASN][1000 genomes]
rs7161326	0.95[CEU][hapmap];0.86[CHB][hapmap];0.86[JPT][hapmap]
rs7161366	0.95[CEU][hapmap];0.86[CHB][hapmap];0.86[JPT][hapmap]
rs7493775	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs762083	0.82[ASN][1000 genomes]
rs8005136	0.86[CHB][hapmap];0.86[JPT][hapmap]
rs8008655	0.86[CHB][hapmap];0.86[JPT][hapmap]
rs8016138	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs8019713	0.82[CEU][hapmap];0.86[CHB][hapmap];0.82[ASN][1000 genomes]
rs9322981	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs968350	0.86[CHB][hapmap];0.82[ASN][1000 genomes]
rs996916	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv530038	chr14:37590543-38336191	Weak transcription Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	58 gene(s)	inside rSNPs	diseases
2	nsv826923	chr14:38017619-38108645	Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Active TSS Enhancers Genic enhancers ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	45 gene(s)	inside rSNPs	diseases
3	nsv832772	chr14:38030300-38225921	Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	49 gene(s)	inside rSNPs	diseases
4	nsv901642	chr14:38041870-38081005	Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Enhancers Weak transcription Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	45 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:38036600-38049000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr14:38037200-38044800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
3	chr14:38037200-38052400	Weak transcription	Liver	Liver
4	chr14:38039600-38042200	Weak transcription	HUES48 Cell Line	embryonic stem cell

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