Variant report

Variant	rs1678690
Chromosome Location	chr6:38781866-38781867
allele	A/C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:38781296..38783678-chr6:38797945..38799574,2	MCF-7	breast:
2	chr6:38781140..38782847-chr6:38810587..38812148,2	K562	blood:

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

rSNPs within LD-proxies of this variant (count:92)

rs_ID	r²[population]
rs1018437	0.96[CEU][hapmap];0.89[EUR][1000 genomes]
rs1564377	0.83[EUR][1000 genomes]
rs1629877	0.93[EUR][1000 genomes]
rs1678638	0.81[JPT][hapmap]
rs1678669	0.81[JPT][hapmap]
rs1678682	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1678691	0.89[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1678692	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1678693	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1678694	1.00[CEU][hapmap];0.96[YRI][hapmap];0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1678695	0.93[EUR][1000 genomes]
rs1678696	0.93[EUR][1000 genomes]
rs1678697	0.93[EUR][1000 genomes]
rs1678698	0.96[CEU][hapmap];0.93[EUR][1000 genomes]
rs1678699	0.96[CEU][hapmap];0.92[EUR][1000 genomes]
rs1678700	0.92[EUR][1000 genomes]
rs1678701	0.92[EUR][1000 genomes]
rs1678702	0.92[EUR][1000 genomes]
rs1678703	0.96[CEU][hapmap];0.90[EUR][1000 genomes]
rs1678706	0.93[EUR][1000 genomes]
rs1678707	0.93[EUR][1000 genomes]
rs1678708	0.96[CEU][hapmap];0.92[EUR][1000 genomes]
rs1678709	0.96[CEU][hapmap];0.93[EUR][1000 genomes]
rs1678712	0.93[EUR][1000 genomes]
rs1678717	0.96[CEU][hapmap];0.93[EUR][1000 genomes]
rs1678742	0.92[CEU][hapmap];0.88[EUR][1000 genomes]
rs1738192	0.81[JPT][hapmap]
rs1738199	0.91[EUR][1000 genomes]
rs1738203	0.96[CEU][hapmap];0.81[JPT][hapmap];0.93[EUR][1000 genomes]
rs1738211	0.96[CEU][hapmap];0.93[EUR][1000 genomes]
rs1738212	0.93[EUR][1000 genomes]
rs1738215	0.96[CEU][hapmap];0.93[EUR][1000 genomes]
rs1738216	0.96[CEU][hapmap];0.93[EUR][1000 genomes]
rs1738217	0.92[EUR][1000 genomes]
rs1738218	0.90[EUR][1000 genomes]
rs1738219	0.96[CEU][hapmap];0.90[EUR][1000 genomes]
rs1738220	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1738221	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1738231	1.00[CEU][hapmap];0.91[CHB][hapmap];0.93[JPT][hapmap];0.88[YRI][hapmap];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1738241	1.00[CEU][hapmap];0.81[JPT][hapmap];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1738243	0.81[JPT][hapmap]
rs2061907	0.92[CEU][hapmap];0.84[EUR][1000 genomes]
rs2179711	0.92[CEU][hapmap];0.83[EUR][1000 genomes]
rs2179712	0.92[CEU][hapmap];0.83[EUR][1000 genomes]
rs2179713	0.92[CEU][hapmap];0.83[EUR][1000 genomes]
rs2395709	0.92[CEU][hapmap]
rs4302660	0.92[CEU][hapmap]
rs4380739	0.92[CEU][hapmap]
rs4386804	0.92[CEU][hapmap];0.81[JPT][hapmap]
rs4391252	0.92[CEU][hapmap]
rs4443498	0.92[CEU][hapmap];0.81[JPT][hapmap]
rs4501424	0.92[CEU][hapmap];0.84[EUR][1000 genomes]
rs4571559	0.89[CEU][hapmap];0.81[JPT][hapmap]
rs4590258	0.92[CEU][hapmap];0.81[JPT][hapmap]
rs4711558	0.92[CEU][hapmap]
rs4714193	0.92[CEU][hapmap];0.81[JPT][hapmap]
rs6458073	0.91[CEU][hapmap];0.83[EUR][1000 genomes]
rs6458074	0.92[CEU][hapmap];0.83[EUR][1000 genomes]
rs6458075	0.92[CEU][hapmap];0.83[EUR][1000 genomes]
rs6458076	0.92[CEU][hapmap];0.83[EUR][1000 genomes]
rs6458077	0.83[EUR][1000 genomes]
rs6458078	0.96[CEU][hapmap];0.83[EUR][1000 genomes]
rs6458080	0.92[CEU][hapmap]
rs6458081	0.92[CEU][hapmap];0.81[JPT][hapmap]
rs6919465	0.93[EUR][1000 genomes]
rs6928952	0.92[CEU][hapmap];0.83[EUR][1000 genomes]
rs6931736	0.92[CEU][hapmap];0.81[JPT][hapmap]
rs6934064	0.92[CEU][hapmap];0.84[EUR][1000 genomes]
rs7748684	0.92[CEU][hapmap];0.84[EUR][1000 genomes]
rs7772148	0.84[EUR][1000 genomes]
rs874808	1.00[CEU][hapmap];0.87[YRI][hapmap];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9296265	0.92[CEU][hapmap];0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs9349100	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs9357290	0.91[CEU][hapmap]
rs9366982	0.92[CEU][hapmap];0.81[JPT][hapmap]
rs9369085	0.92[CEU][hapmap];0.86[EUR][1000 genomes]
rs9369087	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs9369088	0.92[CEU][hapmap]
rs9369089	0.92[CEU][hapmap];0.81[JPT][hapmap]
rs9380787	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs9380789	0.88[CEU][hapmap];0.84[EUR][1000 genomes]
rs9380791	0.92[CEU][hapmap]
rs9380792	0.92[CEU][hapmap]
rs9380796	0.92[CEU][hapmap];0.81[JPT][hapmap]
rs9380798	0.92[CEU][hapmap];0.81[JPT][hapmap]
rs9380799	0.92[CEU][hapmap];0.81[JPT][hapmap]
rs9394544	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs9394545	0.92[CEU][hapmap];0.83[EUR][1000 genomes]
rs9394547	0.92[CEU][hapmap];0.81[JPT][hapmap]
rs9394550	0.92[CEU][hapmap]
rs984524	0.93[EUR][1000 genomes]
rs984525	0.96[CEU][hapmap];0.93[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv885817	chr6:38036420-39019503	Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Strong transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
2	nsv830642	chr6:38645056-38800657	Weak transcription Enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
3	nsv830643	chr6:38726675-38905589	Enhancers Flanking Active TSS Weak transcription Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv602959	chr6:38728142-38786528	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv470814	chr6:38728142-38790149	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
6	nsv462916	chr6:38747770-38782401	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Genic enhancers Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
7	nsv602960	chr6:38747770-38782401	Flanking Active TSS Enhancers Genic enhancers Weak transcription Active TSS Bivalent Enhancer Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:38766800-38824400	Weak transcription	K562	blood
2	chr6:38781000-38782200	Enhancers	HUVEC	blood vessel

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