Variant report

Variant	rs16941213
Chromosome Location	chr15:45559816-45559817
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	ELF1	chr15:45559804-45560072	K562	blood:	n/a	chr15:45559934-45559947

No.	Distal block	Cell Line	Cell type
1	chr15:45497507..45500093-chr15:45558984..45560899,2	MCF-7	breast:
2	chr15:45497097..45498045-chr15:45559451..45560983,6	MCF-7	breast:
3	chr1:114863495..114866232-chr15:45558401..45560807,2	MCF-7	breast:

Variant related genes	Relation type
SLC28A2	TF binding region

Extended variants
information (count: 35 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs10519020	1.00[ASW][hapmap];0.96[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.96[YRI][hapmap];0.97[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs1145073	1.00[MEX][hapmap]
rs1153834	1.00[MEX][hapmap]
rs1153851	1.00[MEX][hapmap]
rs12324044	1.00[MEX][hapmap]
rs13380419	1.00[MEX][hapmap]
rs1618422	0.97[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs16940734	1.00[MEX][hapmap]
rs16941188	1.00[ASW][hapmap];0.84[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.96[YRI][hapmap];0.91[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs16941242	0.92[ASW][hapmap];0.96[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.96[YRI][hapmap];0.94[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs16977579	1.00[MEX][hapmap]
rs1706766	0.95[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs1706769	0.95[YRI][hapmap];0.97[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs1706771	0.95[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs1706773	0.97[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs1719233	0.97[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs2002813	1.00[MEX][hapmap]
rs2433605	1.00[MEX][hapmap]
rs2433621	1.00[MEX][hapmap]
rs2458226	0.97[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs2467857	1.00[MEX][hapmap]
rs2486282	1.00[MEX][hapmap]
rs2486289	1.00[MEX][hapmap]
rs57259026	0.92[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs58415206	0.97[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs61449949	0.80[AMR][1000 genomes]
rs6493142	0.95[YRI][hapmap];0.92[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs6493146	0.97[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs6493148	0.97[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs7180106	1.00[MEX][hapmap]
rs8033317	0.89[AFR][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	nsv916374	chr15:45058112-45769052	Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	104 gene(s)	inside rSNPs	diseases
2	nsv932147	chr15:45319178-45872076	Bivalent/Poised TSS Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Weak transcription Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	87 gene(s)	inside rSNPs	diseases
3	nsv869616	chr15:45401411-45736209	Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Strong transcription Bivalent Enhancer Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	76 gene(s)	inside rSNPs	diseases
4	nsv569315	chr15:45446156-45772448	Flanking Active TSS Weak transcription Active TSS Enhancers Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	75 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:45550200-45570600	Weak transcription	Stomach Mucosa	stomach
2	chr15:45552600-45570600	Weak transcription	Pancreas	Pancrea
3	chr15:45553800-45569000	Weak transcription	Rectal Mucosa Donor 31	rectum
4	chr15:45556000-45560200	Strong transcription	Duodenum Mucosa	Duodenum
5	chr15:45556400-45560400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr15:45558000-45570400	Weak transcription	Rectal Mucosa Donor 29	rectum
7	chr15:45559000-45560400	Weak transcription	Skeletal Muscle Male	skeletal muscle
8	chr15:45559400-45560600	Strong transcription	Fetal Intestine Small	intestine
9	chr15:45559600-45560600	Strong transcription	Fetal Stomach	stomach
10	chr15:45559600-45560600	Enhancers	Gastric	stomach

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