Variant report

Variant	rs9372377
Chromosome Location	chr6:114077091-114077092
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 23 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs10872106	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11153440	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11153442	0.80[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs11153450	0.95[CHB][hapmap];0.89[CHD][hapmap];0.85[GIH][hapmap];0.94[JPT][hapmap];0.95[MEX][hapmap];0.83[TSI][hapmap]
rs12204831	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1980375	0.83[CEU][hapmap];0.90[CHB][hapmap];0.84[CHD][hapmap];0.88[GIH][hapmap];0.82[MEX][hapmap]
rs1997216	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2463311	0.83[ASN][1000 genomes]
rs2498753	0.84[ASN][1000 genomes]
rs2498754	0.82[ASN][1000 genomes]
rs6919507	0.81[CHB][hapmap]
rs6928789	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7764889	0.86[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7773346	0.81[EUR][1000 genomes]
rs9372379	0.90[CHB][hapmap];0.92[CHD][hapmap];0.88[GIH][hapmap];0.82[MEX][hapmap]
rs9384883	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9481393	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9488256	0.81[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs954620	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.89[TSI][hapmap];0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.99[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
rs9372377	MARCKS	cis	lymphoblastoid	seeQTL

Chromatin state (count:23 , 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	chr6:114072000-114079600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
4	chr6:114075000-114077600	Enhancers	Primary B cells from peripheral blood	blood
5	chr6:114075400-114078600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
6	chr6:114075600-114077400	Enhancers	Primary B cells from cord blood	blood
7	chr6:114075800-114077600	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
8	chr6:114076600-114077600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
9	chr6:114076800-114077200	Enhancers	Brain Angular Gyrus	brain
10	chr6:114076800-114077200	Enhancers	Brain Hippocampus Middle	brain
11	chr6:114076800-114077400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
12	chr6:114076800-114077400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
13	chr6:114076800-114077400	Enhancers	NHDF-Ad	bronchial
14	chr6:114076800-114077600	Enhancers	Fetal Muscle Leg	muscle
15	chr6:114076800-114077600	Flanking Active TSS	GM12878-XiMat	blood
16	chr6:114076800-114077800	Enhancers	Duodenum Mucosa	Duodenum
17	chr6:114077000-114077400	Enhancers	Brain Anterior Caudate	brain
18	chr6:114077000-114077400	Enhancers	Brain Inferior Temporal Lobe	brain
19	chr6:114077000-114077400	Enhancers	Brain Substantia Nigra	brain
20	chr6:114077000-114077400	Enhancers	HepG2	liver
21	chr6:114077000-114077600	Enhancers	HSMM	muscle
22	chr6:114077000-114077800	Enhancers	HSMMtube	muscle
23	chr6:114077000-114085000	Weak transcription	Psoas Muscle	Psoas

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