Variant report

Variant	rs541877
Chromosome Location	chr11:102357529-102357530
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 21 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs2850437	0.89[CEU][hapmap];0.80[EUR][1000 genomes]
rs488324	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs514188	0.92[CEU][hapmap];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs555650	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs562383	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs599384	0.89[CEU][hapmap];0.82[EUR][1000 genomes]
rs603608	0.94[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs634743	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs634814	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs636898	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs650423	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs651319	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs653586	0.94[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs659789	0.89[CEU][hapmap]
rs665124	0.94[CEU][hapmap];0.94[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs668660	0.90[CEU][hapmap];0.86[AMR][1000 genomes];0.86[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	nsv1035567	chr11:102264516-102431607	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	nsv469990	chr11:102335609-102413943	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	nsv556150	chr11:102335609-102415859	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv468854	chr11:102336617-102413943	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	nsv556151	chr11:102336617-102413943	Weak transcription Active TSS Flanking Active TSS Enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs541877	TMEM123	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:102341000-102359600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr11:102353400-102361400	Enhancers	HepG2	liver

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Input of quick search could be:

dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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