Variant report

Variant	rs4886883
Chromosome Location	chr15:77888924-77888925
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:77883341..77886336-chr15:77886431..77889031,3	MCF-7	breast:
2	chr15:77888337..77891310-chr15:77900138..77902706,2	MCF-7	breast:
3	chr15:77879891..77882724-chr15:77887714..77890230,2	K562	blood:

Extended variants
information (count: 41 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs1007537	0.86[JPT][hapmap]
rs10152850	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10459650	0.82[CHB][hapmap];0.90[JPT][hapmap]
rs1058129	0.92[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2271396	0.92[CEU][hapmap];0.89[CHB][hapmap];0.87[GIH][hapmap];0.90[MEX][hapmap];0.80[TSI][hapmap];0.89[EUR][1000 genomes]
rs2271397	0.92[CEU][hapmap];0.94[CHB][hapmap];0.88[CHD][hapmap];0.87[GIH][hapmap];0.90[JPT][hapmap];0.90[MEX][hapmap];0.80[TSI][hapmap];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2271398	0.92[CEU][hapmap];0.89[CHB][hapmap];0.87[GIH][hapmap];0.90[MEX][hapmap];0.80[TSI][hapmap];0.89[EUR][1000 genomes]
rs2516302	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2667764	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2667767	0.80[AFR][1000 genomes];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2667783	0.81[MEX][hapmap]
rs2682910	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2682921	0.81[MEX][hapmap];0.81[YRI][hapmap]
rs2867311	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2867312	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4886519	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4886889	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs57471224	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs59745219	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs60701760	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7162113	0.89[JPT][hapmap]
rs7497168	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs8027905	0.93[CHB][hapmap]
rs867916	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs883669	0.81[CEU][hapmap]
rs907374	0.99[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs907390	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs907392	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs907393	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs907395	0.85[CEU][hapmap];0.86[CHB][hapmap];0.89[JPT][hapmap];0.81[ASN][1000 genomes]
rs907396	0.89[CHB][hapmap];0.88[CHD][hapmap];0.90[JPT][hapmap]
rs938090	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1040852	chr15:77160237-78137541	Enhancers Flanking Active TSS Active TSS Strong transcription Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
2	nsv916323	chr15:77485765-78121259	Enhancers Strong transcription Weak transcription Genic enhancers Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
3	nsv833060	chr15:77816654-78035204	Weak transcription Bivalent Enhancer Enhancers Genic enhancers Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
4	esv1806097	chr15:77817889-78301377	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
5	nsv904415	chr15:77845959-77943935	Weak transcription Flanking Active TSS Strong transcription Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
6	nsv904416	chr15:77845959-77967416	Enhancers Flanking Active TSS Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
7	nsv904417	chr15:77851535-77935992	Weak transcription Flanking Active TSS Genic enhancers Enhancers Bivalent/Poised TSS Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
8	nsv904418	chr15:77851535-77963887	Weak transcription Enhancers Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
9	nsv1036749	chr15:77884026-77912408	Weak transcription Enhancers Bivalent Enhancer Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs4886883	STRA6	cis	cerebellum	SCAN

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:77875600-77890000	Weak transcription	Right Ventricle	heart
2	chr15:77875600-77892000	Weak transcription	Right Atrium	heart
3	chr15:77881000-77890600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr15:77883200-77890800	Weak transcription	Rectal Smooth Muscle	rectum
5	chr15:77883800-77896000	Weak transcription	Brain Hippocampus Middle	brain
6	chr15:77885000-77889000	Weak transcription	Spleen	Spleen
7	chr15:77885200-77890000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
8	chr15:77888000-77889200	Weak transcription	H9 Cell Line	embryonic stem cell
9	chr15:77888000-77890400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
10	chr15:77888200-77889200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
11	chr15:77888200-77890000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
12	chr15:77888200-77892000	Weak transcription	HUES6 Cell Line	embryonic stem cell
13	chr15:77888600-77889800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
14	chr15:77888800-77889200	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr15:77888800-77889400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr15:77888800-77889400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived

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