Variant report

Variant	rs6940434
Chromosome Location	chr6:114076884-114076885
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 33 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs2018090	0.86[ASN][1000 genomes]
rs2463310	0.84[ASN][1000 genomes]
rs2615518	0.85[ASN][1000 genomes]
rs2695451	0.85[ASN][1000 genomes]
rs2695452	0.85[ASN][1000 genomes]
rs2810189	0.86[ASN][1000 genomes]
rs34777588	0.97[ASN][1000 genomes]
rs4496829	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4574672	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs55705700	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6568807	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6918103	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6923574	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs71553754	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs773685	0.87[JPT][hapmap]
rs7760821	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7765004	0.91[AFR][1000 genomes];0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9372374	0.91[AFR][1000 genomes];0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9372376	0.91[AFR][1000 genomes];0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9374426	0.91[AFR][1000 genomes];0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9374427	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9384882	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9387174	0.87[AFR][1000 genomes];0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9387176	0.91[AFR][1000 genomes];0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9387177	0.90[JPT][hapmap];0.99[ASN][1000 genomes]
rs9400667	0.91[AFR][1000 genomes];0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9400671	0.86[ASN][1000 genomes]
rs9400672	0.86[ASN][1000 genomes]
rs949599	0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1021774	chr6:114063971-114407280	Enhancers Active TSS Weak transcription Strong transcription Transcr. at gene 5' and 3' Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	60 gene(s)	inside rSNPs	diseases
2	nsv538422	chr6:114063971-114407280	Genic enhancers Enhancers Weak transcription Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	60 gene(s)	inside rSNPs	diseases
3	nsv464023	chr6:114071720-114114057	Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	n/a
4	nsv604532	chr6:114071720-114114057	Enhancers Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	n/a

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6940434	LOC285758	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:114067400-114079200	Weak transcription	Placenta	Placenta
2	chr6:114071800-114079200	Weak transcription	Primary neutrophils fromperipheralblood	blood
3	chr6:114072000-114077000	Weak transcription	HepG2	liver
4	chr6:114072000-114079600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
5	chr6:114075000-114077600	Enhancers	Primary B cells from peripheral blood	blood
6	chr6:114075400-114078600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
7	chr6:114075600-114077400	Enhancers	Primary B cells from cord blood	blood
8	chr6:114075800-114077600	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
9	chr6:114076200-114077000	Enhancers	Fetal Muscle Trunk	muscle
10	chr6:114076600-114077600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
11	chr6:114076800-114077000	Enhancers	Psoas Muscle	Psoas
12	chr6:114076800-114077200	Enhancers	Brain Angular Gyrus	brain
13	chr6:114076800-114077200	Enhancers	Brain Hippocampus Middle	brain
14	chr6:114076800-114077400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
15	chr6:114076800-114077400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
16	chr6:114076800-114077400	Enhancers	NHDF-Ad	bronchial
17	chr6:114076800-114077600	Enhancers	Fetal Muscle Leg	muscle
18	chr6:114076800-114077600	Flanking Active TSS	GM12878-XiMat	blood
19	chr6:114076800-114077800	Enhancers	Duodenum Mucosa	Duodenum

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