Variant report

Variant	rs6929988
Chromosome Location	chr6:73914319-73914320
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 59 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:56)

rs_ID	r²[population]
rs10943080	0.85[EUR][1000 genomes]
rs11756520	0.85[EUR][1000 genomes]
rs12173399	0.87[GIH][hapmap]
rs12215253	0.86[EUR][1000 genomes]
rs13204079	0.83[EUR][1000 genomes]
rs1974371	0.98[EUR][1000 genomes]
rs1974372	0.86[EUR][1000 genomes]
rs1974373	0.86[EUR][1000 genomes]
rs2350371	0.80[EUR][1000 genomes]
rs2350372	0.80[EUR][1000 genomes]
rs2350374	0.84[EUR][1000 genomes]
rs2350375	0.86[EUR][1000 genomes]
rs2350376	0.82[CEU][hapmap];0.85[TSI][hapmap];0.86[EUR][1000 genomes]
rs2350377	0.86[EUR][1000 genomes]
rs2350378	0.86[EUR][1000 genomes]
rs2350379	0.86[EUR][1000 genomes]
rs2350382	0.85[EUR][1000 genomes]
rs2350383	0.82[EUR][1000 genomes]
rs2350384	0.86[EUR][1000 genomes]
rs2350386	0.86[ASW][hapmap]
rs28674715	0.85[EUR][1000 genomes]
rs2882400	0.84[EUR][1000 genomes]
rs2882401	0.86[EUR][1000 genomes]
rs2882402	0.85[EUR][1000 genomes]
rs2882403	0.82[CEU][hapmap];0.83[TSI][hapmap];0.86[EUR][1000 genomes]
rs34641595	0.85[EUR][1000 genomes]
rs3799286	0.85[CEU][hapmap];0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs3897515	0.82[CEU][hapmap];0.85[TSI][hapmap];0.86[EUR][1000 genomes]
rs41265513	0.86[EUR][1000 genomes]
rs4301273	0.81[CEU][hapmap];0.86[EUR][1000 genomes]
rs4639295	0.82[CEU][hapmap];0.85[TSI][hapmap];0.86[EUR][1000 genomes]
rs4640856	0.82[CEU][hapmap];0.85[TSI][hapmap];0.86[EUR][1000 genomes]
rs4991400	0.82[CEU][hapmap];0.85[TSI][hapmap];0.86[EUR][1000 genomes]
rs4991401	0.86[EUR][1000 genomes]
rs4991402	0.86[EUR][1000 genomes]
rs6453653	0.86[EUR][1000 genomes]
rs6453654	0.86[EUR][1000 genomes]
rs6453655	0.80[TSI][hapmap];0.80[EUR][1000 genomes]
rs6935193	0.80[EUR][1000 genomes]
rs6938299	0.82[EUR][1000 genomes]
rs7744556	0.86[EUR][1000 genomes]
rs7744755	0.87[EUR][1000 genomes]
rs7744796	0.86[EUR][1000 genomes]
rs7755953	0.87[EUR][1000 genomes]
rs7770071	0.84[CEU][hapmap]
rs9293925	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9343016	0.81[CEU][hapmap];0.91[TSI][hapmap];0.90[EUR][1000 genomes]
rs9343018	0.85[EUR][1000 genomes]
rs9343020	0.80[EUR][1000 genomes]
rs9360647	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9360648	0.86[EUR][1000 genomes]
rs9360650	0.86[EUR][1000 genomes]
rs9360653	0.92[CEU][hapmap];0.87[GIH][hapmap];0.90[TSI][hapmap];0.92[EUR][1000 genomes]
rs9446870	1.00[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.95[TSI][hapmap];1.00[YRI][hapmap];0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs947752	0.86[EUR][1000 genomes]
rs9689607	0.80[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3410973	chr6:73716033-74419545	Active TSS Bivalent Enhancer Flanking Active TSS Weak transcription Enhancers Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	191 gene(s)	inside rSNPs	diseases
2	nsv1022151	chr6:73876795-73996828	Weak transcription Active TSS Flanking Active TSS Enhancers Strong transcription Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
3	nsv538304	chr6:73876795-73996828	Flanking Active TSS Weak transcription Genic enhancers Enhancers Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6929988	TRADD	trans	brain	seeQTL

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:73902800-73916600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
2	chr6:73906200-73916200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
3	chr6:73910000-73915600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr6:73910800-73916200	Weak transcription	Stomach Mucosa	stomach
5	chr6:73913200-73916600	Weak transcription	Hela-S3	cervix
6	chr6:73913400-73919600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
7	chr6:73913600-73914400	Enhancers	HUES64 Cell Line	embryonic stem cell
8	chr6:73913600-73914400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
9	chr6:73913800-73914400	Enhancers	H1 Cell Line	embryonic stem cell
10	chr6:73913800-73914400	Enhancers	H9 Cell Line	embryonic stem cell
11	chr6:73913800-73914400	Enhancers	HUES6 Cell Line	embryonic stem cell
12	chr6:73913800-73914400	Enhancers	iPS-15b Cell Line	embryonic stem cell
13	chr6:73913800-73914400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
14	chr6:73914000-73914400	Enhancers	HUES48 Cell Line	embryonic stem cell
15	chr6:73914000-73914400	Enhancers	iPS-20b Cell Line	embryonic stem cell

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