Variant report

Variant	rs17005761
Chromosome Location	chr3:19268321-19268322
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 78 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:73)

rs_ID	r²[population]
rs11914667	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11914725	1.00[CEU][hapmap]
rs11915614	1.00[CEU][hapmap]
rs11915915	1.00[CEU][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11916028	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11917497	1.00[CEU][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs11917668	1.00[CEU][hapmap]
rs11918112	1.00[CEU][hapmap]
rs11918147	1.00[CEU][hapmap]
rs11918308	0.87[ASW][hapmap];1.00[CEU][hapmap];0.95[LWK][hapmap];0.94[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11918533	1.00[CEU][hapmap]
rs11918685	1.00[CEU][hapmap]
rs11919461	1.00[CEU][hapmap]
rs11922330	1.00[CEU][hapmap]
rs11923068	1.00[CEU][hapmap]
rs11923157	1.00[CEU][hapmap]
rs11923699	1.00[CEU][hapmap]
rs11924695	1.00[CEU][hapmap]
rs11925180	1.00[CEU][hapmap]
rs11925510	1.00[CEU][hapmap]
rs11926160	1.00[CEU][hapmap]
rs11926703	1.00[CEU][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11927110	1.00[CEU][hapmap];0.89[YRI][hapmap];1.00[EUR][1000 genomes]
rs11927919	1.00[CEU][hapmap]
rs11929014	1.00[CEU][hapmap]
rs12108002	1.00[CEU][hapmap]
rs1493925	1.00[CEU][hapmap]
rs17005744	1.00[CEU][hapmap]
rs17005762	1.00[CEU][hapmap]
rs17005767	1.00[CEU][hapmap]
rs17005770	1.00[CEU][hapmap]
rs17005771	1.00[CEU][hapmap]
rs17005800	1.00[CEU][hapmap]
rs17005811	1.00[CEU][hapmap]
rs1901008	1.00[CEU][hapmap]
rs2122380	1.00[CEU][hapmap]
rs2363094	1.00[CEU][hapmap]
rs2363095	1.00[CEU][hapmap]
rs34069567	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34892402	0.84[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs56969170	0.85[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57356545	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57425340	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57555741	1.00[EUR][1000 genomes]
rs58683436	1.00[EUR][1000 genomes]
rs59043110	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59575962	1.00[EUR][1000 genomes]
rs60737666	1.00[EUR][1000 genomes]
rs6769519	1.00[CEU][hapmap]
rs6783211	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs6797189	1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs7427695	1.00[CEU][hapmap];0.86[LWK][hapmap];1.00[TSI][hapmap];0.83[YRI][hapmap];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7433172	1.00[CEU][hapmap]
rs7613079	1.00[CEU][hapmap]
rs7624713	1.00[EUR][1000 genomes]
rs7625953	1.00[CEU][hapmap]
rs7626630	1.00[CEU][hapmap];0.80[YRI][hapmap];1.00[EUR][1000 genomes]
rs7628012	1.00[CEU][hapmap]
rs7629339	1.00[CEU][hapmap]
rs7632339	1.00[CEU][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs7634126	1.00[CEU][hapmap];0.85[MKK][hapmap];1.00[TSI][hapmap];0.86[YRI][hapmap];1.00[EUR][1000 genomes]
rs7636919	1.00[CEU][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs7639506	1.00[CEU][hapmap]
rs7639587	1.00[EUR][1000 genomes]
rs7639970	1.00[EUR][1000 genomes]
rs7641298	1.00[CEU][hapmap]
rs7643919	1.00[CEU][hapmap]
rs7645122	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs7647965	1.00[CEU][hapmap]
rs7652572	1.00[CEU][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs9755604	1.00[CEU][hapmap]
rs9756893	1.00[CEU][hapmap]
rs9817972	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv517847	chr3:18845347-19483695	Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Enhancers Bivalent Enhancer Weak transcription ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	8 gene(s)	inside rSNPs	diseases
2	nsv1010123	chr3:18990307-19989504	Flanking Active TSS Enhancers Active TSS Weak transcription Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
3	nsv1004602	chr3:19031671-19930052	Active TSS Enhancers ZNF genes & repeats Strong transcription Weak transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS 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	10 gene(s)	inside rSNPs	diseases
4	nsv536511	chr3:19031671-19930052	Enhancers Active TSS Flanking Active TSS Weak transcription Bivalent Enhancer Bivalent/Poised TSS Strong transcription ZNF genes & repeats 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	10 gene(s)	inside rSNPs	diseases
5	nsv524040	chr3:19266335-19269852	Enhancers Weak transcription	n/a	n/a	inside rSNPs	diseases

No data

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:19258600-19273200	Weak transcription	Brain Hippocampus Middle	brain
2	chr3:19262400-19286200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
3	chr3:19262800-19272200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr3:19267400-19268600	Enhancers	iPS-15b Cell Line	embryonic stem cell
5	chr3:19267800-19268600	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
6	chr3:19267800-19268600	Enhancers	HUES48 Cell Line	embryonic stem cell
7	chr3:19267800-19268600	Enhancers	HUES6 Cell Line	embryonic stem cell
8	chr3:19267800-19268600	Enhancers	HUES64 Cell Line	embryonic stem cell
9	chr3:19267800-19268600	Enhancers	iPS-18 Cell Line	embryonic stem cell
10	chr3:19268000-19268400	Enhancers	iPS-20b Cell Line	embryonic stem cell
11	chr3:19268000-19268400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
12	chr3:19268000-19268400	Enhancers	Brain Inferior Temporal Lobe	brain
13	chr3:19268000-19268600	Enhancers	H1 Cell Line	embryonic stem cell

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