Variant report

Variant	rs12437837
Chromosome Location	chr15:40046396-40046397
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:39707618..39710570-chr15:40045505..40048143,2	K562	blood:
2	chr15:39870821..39875173-chr15:40045898..40049866,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000137801	Chromatin interaction

Extended variants
information (count: 60 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:56)

rs_ID	r²[population]
rs1021410	0.93[CHB][hapmap];0.86[JPT][hapmap];0.86[ASN][1000 genomes]
rs1027232	0.80[CHB][hapmap];0.90[JPT][hapmap];0.81[ASN][1000 genomes]
rs11858148	0.93[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs12440567	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1491624	0.82[JPT][hapmap];0.81[ASN][1000 genomes]
rs1565559	0.81[JPT][hapmap]
rs1565561	0.81[JPT][hapmap]
rs16952186	0.81[ASN][1000 genomes]
rs16969621	0.85[JPT][hapmap]
rs16969773	0.87[CEU][hapmap]
rs16969781	0.87[CEU][hapmap];0.84[YRI][hapmap]
rs16969789	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs16969802	0.93[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs16969808	0.87[CEU][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes]
rs16969811	0.87[CEU][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes]
rs16969823	1.00[CEU][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes]
rs1844863	0.89[JPT][hapmap];0.83[ASN][1000 genomes]
rs1906166	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2029584	0.80[JPT][hapmap];0.81[ASN][1000 genomes]
rs2171312	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs28450006	0.82[ASN][1000 genomes]
rs28538495	0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs28861150	0.90[AFR][1000 genomes]
rs28884199	0.99[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs28896916	1.00[AMR][1000 genomes];0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs34320375	0.83[ASN][1000 genomes]
rs35652496	0.81[ASN][1000 genomes]
rs41424848	0.88[AFR][1000 genomes]
rs4923838	0.85[JPT][hapmap];0.83[ASN][1000 genomes]
rs4924379	0.85[JPT][hapmap]
rs4924383	0.81[ASN][1000 genomes]
rs4924387	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4924388	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4924390	0.80[JPT][hapmap];0.83[ASN][1000 genomes]
rs4924392	0.93[AMR][1000 genomes];0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs58312028	0.81[ASN][1000 genomes]
rs59180773	0.83[ASN][1000 genomes]
rs59434895	1.00[ASN][1000 genomes]
rs60431166	1.00[ASN][1000 genomes]
rs61695850	1.00[ASN][1000 genomes]
rs62004808	0.83[ASN][1000 genomes]
rs7173020	0.81[ASN][1000 genomes]
rs7179742	0.80[JPT][hapmap];0.83[ASN][1000 genomes]
rs7179838	0.81[JPT][hapmap];0.83[ASN][1000 genomes]
rs7180846	0.80[JPT][hapmap];0.83[ASN][1000 genomes]
rs72727079	0.94[AFR][1000 genomes]
rs72727081	0.94[AFR][1000 genomes]
rs72727083	0.94[AFR][1000 genomes]
rs72727084	0.94[AFR][1000 genomes]
rs72727092	0.88[AFR][1000 genomes]
rs73397133	0.81[ASN][1000 genomes]
rs8024166	0.81[ASN][1000 genomes]
rs8032864	0.86[JPT][hapmap]
rs8034520	0.85[JPT][hapmap]
rs8034550	0.86[JPT][hapmap]
rs8035291	0.83[JPT][hapmap];0.87[ASN][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	esv3373125	chr15:39691567-40061262	Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Weak transcription Bivalent/Poised TSS Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
2	nsv832978	chr15:39899759-40094881	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
3	nsv530816	chr15:40003136-40586792	Bivalent Enhancer Strong transcription Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	63 gene(s)	inside rSNPs	diseases
4	nsv832979	chr15:40041928-40218407	Genic enhancers Weak transcription Enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:40035600-40050000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr15:40039400-40049000	Weak transcription	HUVEC	blood vessel
3	chr15:40040800-40063400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr15:40043600-40049000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
5	chr15:40045000-40047400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
6	chr15:40045600-40054400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

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