Variant report

Variant	rs624759
Chromosome Location	chr11:57642126-57642127
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 69 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:63)

rs_ID	r²[population]
rs10896634	0.84[ASN][1000 genomes]
rs11229087	0.82[ASN][1000 genomes]
rs11229115	0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1267146	0.82[ASN][1000 genomes]
rs1424752	0.84[ASN][1000 genomes]
rs2848445	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs479573	0.81[ASN][1000 genomes]
rs480933	0.84[ASN][1000 genomes]
rs483030	0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs486995	0.84[EUR][1000 genomes]
rs491719	0.84[ASN][1000 genomes]
rs492131	0.84[ASN][1000 genomes]
rs501054	0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs501738	0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs503037	0.86[ASN][1000 genomes]
rs504311	0.84[ASN][1000 genomes]
rs507946	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs509564	0.86[ASN][1000 genomes]
rs511708	0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs515939	0.82[ASN][1000 genomes]
rs517638	0.84[ASN][1000 genomes]
rs518804	0.84[ASN][1000 genomes]
rs523985	0.84[ASN][1000 genomes]
rs527140	0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs530094	0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs536673	0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs537627	0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs540234	0.86[ASN][1000 genomes]
rs541245	0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs544446	0.84[ASN][1000 genomes]
rs549022	0.86[ASN][1000 genomes]
rs549279	0.86[ASN][1000 genomes]
rs558653	0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs567017	0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs577741	0.84[ASN][1000 genomes]
rs581217	0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs58132137	0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs594233	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs604094	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs604344	0.86[ASN][1000 genomes]
rs608648	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs609596	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs612688	0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs61888873	0.84[ASN][1000 genomes]
rs61888880	0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs627816	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs628100	0.81[ASN][1000 genomes]
rs636807	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs638864	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs640767	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs645097	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs647264	0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs656227	0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs658183	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs666021	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs669433	0.86[ASN][1000 genomes]
rs669950	0.85[ASN][1000 genomes]
rs675154	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs676205	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs685110	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs694131	0.95[EUR][1000 genomes]
rs694261	0.95[EUR][1000 genomes]
rs96894	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1044030	chr11:57073395-58035564	Transcr. at gene 5' and 3' Weak transcription Flanking Active TSS Strong transcription Enhancers Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	136 gene(s)	inside rSNPs	diseases
2	nsv541047	chr11:57073395-58035564	Active TSS Enhancers Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	136 gene(s)	inside rSNPs	diseases
3	nsv530621	chr11:57139699-57703639	Enhancers Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Weak transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	109 gene(s)	inside rSNPs	diseases
4	nsv1040913	chr11:57315006-57696122	Active TSS Flanking Active TSS Weak transcription Enhancers Strong transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	93 gene(s)	inside rSNPs	diseases
5	nsv1054205	chr11:57544264-58358509	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
6	nsv897589	chr11:57623815-58052357	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs624759	MED19	Cis_1M	lymphoblastoid	RTeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:57637400-57642600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr11:57640400-57642800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr11:57641200-57646200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
4	chr11:57641400-57642400	Weak transcription	HMEC	breast
5	chr11:57641800-57642600	Flanking Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
6	chr11:57642000-57642600	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin

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