Variant report

Variant	rs1560478
Chromosome Location	chr7:14624270-14624271
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 62 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:57)

rs_ID	r²[population]
rs10156103	0.80[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap]
rs10227646	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10236011	0.94[CHB][hapmap];0.92[CHD][hapmap];0.94[JPT][hapmap];0.95[ASN][1000 genomes]
rs10246717	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10246968	0.81[CHB][hapmap];0.82[JPT][hapmap]
rs10251321	0.85[CHB][hapmap];0.83[JPT][hapmap]
rs10254418	0.92[CHD][hapmap];0.83[JPT][hapmap]
rs10256605	0.87[CHD][hapmap]
rs10273764	0.92[CHD][hapmap]
rs11768578	0.98[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs11773345	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1189365	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap]
rs11983714	0.92[CHD][hapmap]
rs12670550	0.85[CHB][hapmap];0.83[JPT][hapmap]
rs1357864	0.80[AMR][1000 genomes];0.87[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1357865	0.87[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1357866	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs1357867	0.87[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1357868	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1357869	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1431522	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap]
rs1474385	0.96[CEU][hapmap];0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1525083	1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.95[LWK][hapmap];0.87[MKK][hapmap];0.98[ASN][1000 genomes]
rs1525088	0.92[CHD][hapmap]
rs1525089	0.89[CHB][hapmap];0.83[JPT][hapmap];0.90[ASN][1000 genomes]
rs17150062	0.92[CHD][hapmap];0.85[ASN][1000 genomes]
rs17168296	0.84[ASN][1000 genomes]
rs17168298	0.90[CHD][hapmap];0.84[ASN][1000 genomes]
rs17168299	0.90[CHD][hapmap];0.82[ASN][1000 genomes]
rs17595206	1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.82[LWK][hapmap];0.84[MKK][hapmap];0.93[YRI][hapmap];0.90[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs17595234	1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.92[LWK][hapmap];0.82[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs17602988	0.92[CHD][hapmap]
rs17603201	0.84[CHB][hapmap];0.83[JPT][hapmap]
rs17603341	0.85[CHB][hapmap];0.83[JPT][hapmap]
rs3795245	0.85[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs3951243	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4537212	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55681155	0.83[ASN][1000 genomes]
rs62443555	0.82[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs62443556	0.82[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs62443557	0.82[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs66473448	0.96[ASN][1000 genomes]
rs6944740	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.87[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.98[TSI][hapmap];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6951414	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6960433	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6969050	0.88[CHB][hapmap];0.81[JPT][hapmap]
rs73059484	0.83[ASN][1000 genomes]
rs73059497	0.80[ASN][1000 genomes]
rs7777504	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs7796807	0.85[ASN][1000 genomes]
rs7809502	0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7810871	1.00[ASW][hapmap];1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[CHD][hapmap];0.87[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.88[MKK][hapmap];0.98[TSI][hapmap];1.00[YRI][hapmap]
rs879693	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs940690	0.98[ASN][1000 genomes]
rs940691	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs953604	0.85[CHB][hapmap];0.92[CHD][hapmap];0.83[JPT][hapmap];0.82[ASN][1000 genomes]
rs953605	0.80[CHB][hapmap];0.92[CHD][hapmap];0.83[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949033	chr7:14086106-14860323	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv887710	chr7:14587948-14653702	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
3	nsv887711	chr7:14619026-14671325	ZNF genes & repeats Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
4	nsv1031041	chr7:14624127-14999201	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv538741	chr7:14624127-14999201	Enhancers Flanking Active TSS Weak transcription Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:14622400-14625000	Weak transcription	Rectal Mucosa Donor 31	rectum
2	chr7:14623400-14624400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
3	chr7:14624000-14626800	ZNF genes & repeats	Liver	Liver

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