Variant report

Variant	rs6749711
Chromosome Location	chr2:211353028-211353029
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 39 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs10184506	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs10195425	1.00[CEU][hapmap];0.82[EUR][1000 genomes]
rs10515951	0.81[JPT][hapmap]
rs10932336	0.95[ASN][1000 genomes]
rs10932340	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12694200	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13005638	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13013076	0.85[CEU][hapmap];0.82[JPT][hapmap]
rs1509816	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1858194	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1858195	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2160851	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2287426	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs2287427	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs2370962	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2664239	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs34374637	0.82[EUR][1000 genomes]
rs35003355	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs3732058	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs3755185	0.82[EUR][1000 genomes]
rs3755186	1.00[CEU][hapmap];0.82[EUR][1000 genomes]
rs3755187	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs3770686	0.83[EUR][1000 genomes]
rs3770688	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs3770693	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs3770696	1.00[CEU][hapmap];0.82[EUR][1000 genomes]
rs3845634	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4672580	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4672581	0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4672582	0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs57718949	0.90[EUR][1000 genomes]
rs62203712	0.80[ASN][1000 genomes]
rs6752530	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7590759	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs759688	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs759689	0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs918234	1.00[CEU][hapmap];0.93[CHB][hapmap];0.95[JPT][hapmap];0.88[YRI][hapmap]
rs9941507	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3398091	chr2:211315261-211634200	Active TSS Flanking Active TSS Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6749711	LANCL1	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:211343000-211355200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
2	chr2:211343400-211363600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr2:211349800-211354000	Weak transcription	HepG2	liver
4	chr2:211352200-211361000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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