Variant report

Variant	rs1407718
Chromosome Location	chr1:227879263-227879264
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:227750868..227753411-chr1:227876649..227879488,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000181450	Chromatin interaction

Extended variants
information (count: 101 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10047205	0.83[JPT][hapmap]
rs1021553	1.00[CEU][hapmap];0.96[CHB][hapmap];0.87[JPT][hapmap];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1021554	1.00[CEU][hapmap];0.95[CHB][hapmap];0.86[JPT][hapmap];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10495276	0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10799423	0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10799431	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10799432	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10799433	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10799434	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10799435	1.00[CEU][hapmap];0.84[CHB][hapmap];0.91[JPT][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10916158	0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10916159	0.82[EUR][1000 genomes]
rs10916165	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10916169	0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10916175	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10916176	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10916179	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10916182	1.00[CEU][hapmap];0.83[CHB][hapmap];0.91[JPT][hapmap];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10916183	1.00[CEU][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10916184	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10916185	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10916187	1.00[CEU][hapmap];0.82[CHB][hapmap];0.86[JPT][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11484723	0.91[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11580570	0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12023298	0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12025815	1.00[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12040302	0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12070002	1.00[CEU][hapmap];0.83[CHB][hapmap];0.91[JPT][hapmap];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12070036	1.00[CEU][hapmap];0.83[CHB][hapmap];0.91[JPT][hapmap];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12079123	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12080321	1.00[CEU][hapmap];0.84[CHB][hapmap];0.91[JPT][hapmap];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12096675	0.87[JPT][hapmap]
rs12132444	1.00[CEU][hapmap];0.96[CHB][hapmap];0.83[JPT][hapmap];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12740317	0.84[EUR][1000 genomes]
rs1495842	0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1495845	0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1495847	0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs16848029	0.83[JPT][hapmap]
rs1845758	0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2018401	0.83[EUR][1000 genomes]
rs2088210	0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2088211	0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2088212	0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2088214	0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2093609	1.00[CEU][hapmap];0.91[JPT][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2093610	0.96[CEU][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2132367	1.00[CEU][hapmap];0.83[CHB][hapmap];0.91[JPT][hapmap];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2201571	0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2644140	0.83[EUR][1000 genomes]
rs28407112	0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2935145	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2935146	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2935147	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2935152	1.00[CEU][hapmap];0.83[CHB][hapmap];0.87[JPT][hapmap];0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2935155	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2999741	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2999743	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2999744	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2999745	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2999746	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3010183	1.00[CEU][hapmap];0.83[CHB][hapmap];0.86[JPT][hapmap];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3010186	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3010190	1.00[CEU][hapmap];0.84[CHB][hapmap];0.91[JPT][hapmap];0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3010191	1.00[CEU][hapmap];0.83[CHB][hapmap];0.87[JPT][hapmap];0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3010192	1.00[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap];0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3010193	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3010194	1.00[CEU][hapmap];0.84[CHB][hapmap];0.87[JPT][hapmap];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3010195	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3010196	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3748806	0.83[JPT][hapmap]
rs4359006	0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4376731	0.83[JPT][hapmap]
rs4653512	0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4653514	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4653515	0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4653848	0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4653849	1.00[CEU][hapmap];0.95[CHB][hapmap];0.87[JPT][hapmap];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4653850	0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4653853	1.00[CEU][hapmap];0.95[CHB][hapmap];0.86[JPT][hapmap];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6664682	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6671825	0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6683151	1.00[CEU][hapmap];0.83[CHB][hapmap];0.91[JPT][hapmap]
rs6697867	1.00[CEU][hapmap];0.96[CHB][hapmap];0.87[JPT][hapmap];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7512348	0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7523915	0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7528094	1.00[CEU][hapmap];0.95[CHB][hapmap];0.87[JPT][hapmap];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7539151	0.83[JPT][hapmap]
rs7539914	0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7551459	0.88[EUR][1000 genomes]
rs903683	0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs903684	0.83[EUR][1000 genomes]
rs903690	1.00[CEU][hapmap];0.95[CHB][hapmap];0.87[JPT][hapmap];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs903697	0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs951083	0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs976959	0.88[EUR][1000 genomes];0.82[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	nsv534002	chr1:227315186-228047108	Bivalent/Poised TSS Weak transcription Enhancers ZNF genes & repeats Strong transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	54 gene(s)	inside rSNPs	diseases
2	nsv873246	chr1:227694948-227884465	Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Strong transcription Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv1007479	chr1:227695868-227984466	Genic enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	33 gene(s)	inside rSNPs	diseases
4	esv3327012	chr1:227741102-227890968	Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Strong transcription Bivalent/Poised TSS Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
5	nsv1010605	chr1:227770415-228332690	Flanking Active TSS ZNF genes & repeats Weak transcription Strong transcription Genic enhancers Enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	73 gene(s)	inside rSNPs	diseases
6	nsv945674	chr1:227862668-227899939	Enhancers ZNF genes & repeats Weak transcription Active TSS	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:0 , 50 per page) page:

No data

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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