Variant report

Variant	rs11857411
Chromosome Location	chr15:58863526-58863527
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 25 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs10152558	0.84[JPT][hapmap];0.84[AMR][1000 genomes]
rs10851637	0.84[AMR][1000 genomes]
rs11854073	0.88[LWK][hapmap]
rs1427282	0.88[LWK][hapmap]
rs17190678	0.86[ASW][hapmap]
rs17269397	0.86[ASW][hapmap];0.85[JPT][hapmap];0.96[MEX][hapmap];0.89[MKK][hapmap];0.84[AMR][1000 genomes]
rs28864995	0.88[LWK][hapmap];0.81[MKK][hapmap]
rs347117	0.88[LWK][hapmap]
rs383902	0.88[LWK][hapmap]
rs4775087	0.88[LWK][hapmap]
rs507801	0.84[JPT][hapmap]
rs6083	0.83[MEX][hapmap]
rs6494029	0.88[LWK][hapmap]
rs67897154	0.84[AMR][1000 genomes]
rs7161889	0.88[LWK][hapmap]
rs7171818	1.00[JPT][hapmap]
rs8027708	0.84[AMR][1000 genomes]
rs8030893	0.84[AMR][1000 genomes]
rs972801	0.87[LWK][hapmap]

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	nsv1051058	chr15:58519922-59092530	Strong transcription Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
2	nsv542401	chr15:58519922-59092530	Strong transcription Weak transcription Active TSS Flanking Active TSS Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
3	nsv1043041	chr15:58744505-58876327	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	nsv569601	chr15:58800766-58866156	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	nsv1050231	chr15:58848727-58863526	Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Bivalent Enhancer Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
6	nsv1043560	chr15:58851369-58863526	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:58853200-58865000	Weak transcription	Rectal Mucosa Donor 29	rectum
2	chr15:58854600-58864200	Weak transcription	HepG2	liver
3	chr15:58854800-58868400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr15:58859000-58865600	Weak transcription	Liver	Liver
5	chr15:58860800-58863800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
6	chr15:58860800-58864800	Weak transcription	Rectal Mucosa Donor 31	rectum
7	chr15:58860800-58865600	Weak transcription	Duodenum Mucosa	Duodenum
8	chr15:58860800-58865600	Weak transcription	Fetal Thymus	thymus
9	chr15:58860800-58865800	Weak transcription	Stomach Mucosa	stomach
10	chr15:58860800-58866000	Weak transcription	Thymus	Thymus
11	chr15:58861200-58864000	Weak transcription	Brain Anterior Caudate	brain
12	chr15:58861200-58866200	Weak transcription	Primary T cells from cord blood	blood
13	chr15:58862800-58863800	Weak transcription	Fetal Brain Female	brain
14	chr15:58863200-58864400	Enhancers	Fetal Brain Male	brain

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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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