Variant report

Variant	rs1738177
Chromosome Location	chr6:38733234-38733235
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 59 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs1018437	0.80[JPT][hapmap]
rs1033525	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1033526	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1157884	0.80[JPT][hapmap]
rs1614699	0.87[JPT][hapmap]
rs1678638	0.82[JPT][hapmap]
rs1678657	0.87[JPT][hapmap]
rs1678661	0.93[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1678669	0.82[JPT][hapmap]
rs1678717	0.80[JPT][hapmap]
rs1678718	0.80[JPT][hapmap]
rs1678725	0.80[JPT][hapmap]
rs1678742	0.80[JPT][hapmap]
rs1738184	0.80[JPT][hapmap]
rs1738192	0.82[JPT][hapmap]
rs1738203	0.81[JPT][hapmap]
rs1738239	0.88[CHB][hapmap];0.80[JPT][hapmap]
rs1738240	0.88[CHB][hapmap]
rs1738241	0.82[JPT][hapmap]
rs1738243	0.82[JPT][hapmap]
rs1738247	0.80[JPT][hapmap]
rs1738263	0.87[JPT][hapmap]
rs2206860	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2395709	0.81[JPT][hapmap]
rs2448399	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2746170	0.88[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs4386804	0.82[JPT][hapmap]
rs4391252	0.80[JPT][hapmap]
rs4443498	0.82[JPT][hapmap]
rs4571559	0.82[JPT][hapmap]
rs4590258	0.82[JPT][hapmap]
rs4711558	0.80[JPT][hapmap]
rs4714193	0.82[JPT][hapmap]
rs6458080	0.80[JPT][hapmap]
rs6458081	0.82[JPT][hapmap]
rs6931736	0.82[JPT][hapmap]
rs769064	0.88[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs862422	0.80[JPT][hapmap]
rs862425	0.80[JPT][hapmap]
rs862427	0.80[JPT][hapmap]
rs9296265	0.80[JPT][hapmap]
rs9357290	0.80[JPT][hapmap]
rs9366982	0.82[JPT][hapmap]
rs9369089	0.81[JPT][hapmap]
rs9380789	0.80[JPT][hapmap]
rs9380796	0.82[JPT][hapmap]
rs9380798	0.82[JPT][hapmap]
rs9380799	0.82[JPT][hapmap]
rs9394531	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9394547	0.81[JPT][hapmap]
rs9394550	0.80[JPT][hapmap]
rs982705	0.80[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1021991	chr6:37893949-38738720	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
2	nsv885817	chr6:38036420-39019503	Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Strong transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
3	nsv830642	chr6:38645056-38800657	Weak transcription Enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
4	nsv830643	chr6:38726675-38905589	Enhancers Flanking Active TSS Weak transcription Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	nsv462915	chr6:38728142-38773293	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
6	nsv602959	chr6:38728142-38786528	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
7	nsv470814	chr6:38728142-38790149	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs1738177	GLO1	cis	Skin Sun Exposed Lower leg	GTEx
rs1738177	GLO1	cis	Esophagus Mucosa	GTEx

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:38706200-38738600	Weak transcription	K562	blood
2	chr6:38723400-38738400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links