Variant report

Variant	rs6795607
Chromosome Location	chr3:24631165-24631166
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:24562368..24564419-chr3:24630308..24632116,2	MCF-7	breast:
2	chr3:24536512..24538527-chr3:24630331..24633060,2	MCF-7	breast:
3	chr3:24561637..24564260-chr3:24630059..24632291,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000228791	Chromatin interaction
ENSG00000265028	Chromatin interaction
ENSG00000151090	Chromatin interaction

Extended variants
information (count: 47 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs10212332	0.92[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs10490837	0.93[CHB][hapmap];0.84[MEX][hapmap]
rs11712286	1.00[CEU][hapmap];0.93[JPT][hapmap];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs13318800	0.81[ASN][1000 genomes]
rs1561079	1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs17014900	0.93[CHB][hapmap]
rs17014902	0.93[CHB][hapmap]
rs1992040	0.94[JPT][hapmap];0.81[ASN][1000 genomes]
rs1992041	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2043578	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs2117873	0.82[ASN][1000 genomes]
rs2196434	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2196438	0.96[CHD][hapmap];0.94[JPT][hapmap];0.84[MEX][hapmap];0.81[ASN][1000 genomes]
rs28562279	0.88[ASN][1000 genomes]
rs3919672	0.86[CHB][hapmap];1.00[CHD][hapmap];0.94[JPT][hapmap];0.84[MEX][hapmap]
rs56268655	0.80[ASN][1000 genomes]
rs58152527	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs61701305	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6550878	0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6550879	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6767534	0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6767717	0.90[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs6769209	0.91[ASN][1000 genomes]
rs6770518	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6771818	0.91[ASN][1000 genomes]
rs6781066	0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6801494	0.90[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs73040438	0.81[ASN][1000 genomes]
rs7647700	0.81[ASN][1000 genomes]
rs930317	0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9310745	0.86[CHB][hapmap];1.00[CHD][hapmap];0.94[JPT][hapmap];0.84[MEX][hapmap];0.82[ASN][1000 genomes]
rs9819865	0.87[ASW][hapmap];0.88[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.81[TSI][hapmap];0.92[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs9823545	0.93[JPT][hapmap];0.81[ASN][1000 genomes]
rs9830859	0.85[CEU][hapmap];0.91[CHB][hapmap];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9835497	0.86[CHB][hapmap];1.00[CHD][hapmap];0.94[JPT][hapmap];0.82[ASN][1000 genomes]
rs9838616	1.00[CHD][hapmap];0.94[JPT][hapmap];0.84[MEX][hapmap];0.81[ASN][1000 genomes]
rs9838720	1.00[CHD][hapmap];0.93[JPT][hapmap];0.84[MEX][hapmap];0.81[ASN][1000 genomes]
rs9850781	0.81[ASN][1000 genomes]
rs9853927	0.86[CHB][hapmap];1.00[CHD][hapmap]
rs9859978	0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9861129	0.84[CHB][hapmap];0.92[JPT][hapmap];0.81[ASN][1000 genomes]
rs9868375	0.88[CEU][hapmap];0.92[CHB][hapmap];0.84[JPT][hapmap];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9873830	0.92[CHB][hapmap];0.93[JPT][hapmap];0.82[ASN][1000 genomes]
rs9878606	0.86[CEU][hapmap];0.85[CHB][hapmap];0.91[JPT][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv834641	chr3:24465862-24633738	Enhancers Bivalent Enhancer Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	19 gene(s)	inside rSNPs	diseases
2	nsv834642	chr3:24475558-24640593	Enhancers Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	19 gene(s)	inside rSNPs	diseases
3	nsv999384	chr3:24525345-24656873	Enhancers Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA	18 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6795607	RPL15	cis	cerebellum	SCAN

Chromatin state (count:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:24621200-24633400	Weak transcription	K562	blood
2	chr3:24628800-24633000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr3:24629600-24631800	Enhancers	Colon Smooth Muscle	Colon
4	chr3:24629600-24631800	Flanking Active TSS	Fetal Intestine Small	intestine
5	chr3:24629600-24632000	Enhancers	Duodenum Mucosa	Duodenum
6	chr3:24629600-24632000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
7	chr3:24629600-24632200	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
8	chr3:24629600-24633600	Enhancers	Rectal Mucosa Donor 31	rectum
9	chr3:24629800-24631200	Enhancers	Adipose Nuclei	Adipose
10	chr3:24629800-24631400	Enhancers	Skeletal Muscle Female	skeletal muscle
11	chr3:24629800-24631800	Enhancers	Rectal Smooth Muscle	rectum
12	chr3:24629800-24632000	Enhancers	Fetal Stomach	stomach
13	chr3:24629800-24633200	Enhancers	Fetal Lung	lung
14	chr3:24630000-24631200	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
15	chr3:24630000-24632000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
16	chr3:24630000-24632000	Enhancers	Fetal Kidney	kidney
17	chr3:24630200-24631200	Enhancers	Stomach Smooth Muscle	stomach
18	chr3:24630200-24631600	Weak transcription	Sigmoid Colon	Sigmoid Colon
19	chr3:24630600-24632800	Weak transcription	Stomach Mucosa	stomach
20	chr3:24630800-24631400	Enhancers	Primary hematopoietic stem cells short term culture	blood
21	chr3:24630800-24632000	Enhancers	Brain Germinal Matrix	brain
22	chr3:24630800-24634200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
23	chr3:24630800-24640800	Weak transcription	Small Intestine	intestine
24	chr3:24631000-24631400	Active TSS	Fetal Intestine Large	intestine
25	chr3:24631000-24631600	Active TSS	Primary hematopoietic stem cells	blood
26	chr3:24631000-24631800	Active TSS	Rectal Mucosa Donor 29	rectum
27	chr3:24631000-24632000	Weak transcription	Duodenum Smooth Muscle	Duodenum
28	chr3:24631000-24632800	Enhancers	HUVEC	blood vessel

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