Variant report

Variant	rs61259878
Chromosome Location	chr15:49724761-49724762
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 84 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:82)

rs_ID	r²[population]
rs1023683	0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10519221	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10519226	0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10519227	0.86[AFR][1000 genomes];0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1055254	0.81[EUR][1000 genomes]
rs11630318	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11632038	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11632303	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11632575	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11633282	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11634636	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11635005	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11635308	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11635354	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11635814	1.00[ASN][1000 genomes]
rs11638314	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11638515	0.83[EUR][1000 genomes]
rs11638606	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11639423	0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12592277	0.91[AFR][1000 genomes];0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12913966	1.00[ASN][1000 genomes]
rs17396119	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17396536	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17396747	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17397211	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17400427	0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17400706	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs17400916	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs17476361	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17476940	0.81[EUR][1000 genomes]
rs17477722	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17477923	0.84[AFR][1000 genomes]
rs17478618	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17479003	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17479205	0.86[AFR][1000 genomes];0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs17479289	0.86[AFR][1000 genomes];0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2078024	0.81[EUR][1000 genomes]
rs28393768	1.00[ASN][1000 genomes]
rs28408092	1.00[ASN][1000 genomes]
rs28409376	1.00[ASN][1000 genomes]
rs28430272	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs28484276	1.00[ASN][1000 genomes]
rs28669217	1.00[ASN][1000 genomes]
rs35692325	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4338740	0.84[AFR][1000 genomes]
rs57252806	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57749497	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57785991	1.00[ASN][1000 genomes]
rs59112977	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59356430	0.81[EUR][1000 genomes]
rs60594237	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7162633	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7165168	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7167474	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7168316	0.86[AFR][1000 genomes];0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7177624	1.00[ASN][1000 genomes]
rs73390392	1.00[ASN][1000 genomes]
rs73392236	1.00[ASN][1000 genomes]
rs73392249	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73392256	1.00[ASN][1000 genomes]
rs73392277	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73392288	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73394324	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73394331	0.90[EUR][1000 genomes]
rs73394333	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73394339	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73394355	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73394359	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73396206	0.81[EUR][1000 genomes]
rs73396235	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73396238	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73398223	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73398243	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73398264	0.83[AFR][1000 genomes]
rs73398272	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73398276	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs73398284	0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73400205	0.83[AFR][1000 genomes];0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs8027094	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8030457	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8033311	0.81[EUR][1000 genomes]
rs8040716	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1039368	chr15:49566094-49764066	Weak transcription ZNF genes & repeats Enhancers Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv833002	chr15:49621400-49781799	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs61259878	FGF7	cis	Muscle Skeletal	GTEx

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:49716200-49732200	Transcr. at gene 5' and 3'	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
2	chr15:49716400-49737200	Transcr. at gene 5' and 3'	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
3	chr15:49718000-49727800	Weak transcription	HSMMtube	muscle
4	chr15:49718000-49731200	Weak transcription	Left Ventricle	heart
5	chr15:49719400-49731200	Weak transcription	Fetal Muscle Leg	muscle
6	chr15:49721000-49736200	Weak transcription	Right Ventricle	heart
7	chr15:49721800-49726200	Transcr. at gene 5' and 3'	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
8	chr15:49721800-49730000	Weak transcription	Primary hematopoietic stem cells	blood
9	chr15:49722400-49726000	Weak transcription	Duodenum Smooth Muscle	Duodenum
10	chr15:49722600-49725400	Weak transcription	Rectal Smooth Muscle	rectum
11	chr15:49722600-49725800	Weak transcription	Ovary	ovary
12	chr15:49722600-49727200	Weak transcription	Fetal Lung	lung
13	chr15:49722800-49725400	Weak transcription	Stomach Smooth Muscle	stomach
14	chr15:49722800-49726000	Weak transcription	Colon Smooth Muscle	Colon
15	chr15:49722800-49728200	Weak transcription	Fetal Stomach	stomach
16	chr15:49723200-49725800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
17	chr15:49723200-49726200	Weak transcription	Fetal Heart	heart
18	chr15:49723800-49725800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
19	chr15:49723800-49725800	Weak transcription	NHDF-Ad	bronchial
20	chr15:49723800-49727400	Weak transcription	NHLF	lung
21	chr15:49724200-49727400	Enhancers	Osteobl	bone

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