Variant report

Variant	rs10872404
Chromosome Location	chr6:133628982-133628983
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 32 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10457606	0.85[EUR][1000 genomes]
rs11154722	1.00[CEU][hapmap];0.87[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs11154723	0.89[EUR][1000 genomes]
rs1336519	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1932746	1.00[CEU][hapmap];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2180730	0.83[CHB][hapmap]
rs2184784	0.80[CEU][hapmap];0.82[JPT][hapmap];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2327321	0.83[CHB][hapmap]
rs6569877	1.00[CEU][hapmap];0.82[JPT][hapmap];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6569878	0.81[ASN][1000 genomes]
rs6900552	0.82[JPT][hapmap];0.84[ASN][1000 genomes]
rs6924629	1.00[CEU][hapmap];0.81[JPT][hapmap];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6926146	0.84[ASN][1000 genomes]
rs6930942	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6941848	0.80[CHB][hapmap]
rs754997	0.80[CHB][hapmap]
rs9321395	0.83[CHB][hapmap]
rs9321396	0.83[CHB][hapmap]
rs9373052	0.80[CEU][hapmap]
rs9375956	0.91[CEU][hapmap];0.85[EUR][1000 genomes]
rs9399056	0.82[EUR][1000 genomes]
rs9399059	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9483564	0.80[CHB][hapmap]
rs9483565	0.83[CHB][hapmap]
rs9483568	0.92[CHB][hapmap];0.86[JPT][hapmap]
rs9483575	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9493580	0.80[CHB][hapmap]
rs9493581	0.83[CHB][hapmap]
rs950374	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][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	nsv886678	chr6:133550279-133631190	Flanking Bivalent TSS/Enh Bivalent Enhancer Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Active TSS ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv886679	chr6:133578733-133635272	Flanking Bivalent TSS/Enh ZNF genes & repeats Enhancers Bivalent Enhancer Weak transcription Active TSS Flanking Active TSS Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv886680	chr6:133613759-133663021	Enhancers Flanking Active TSS Weak transcription Active TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:133599000-133629000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
2	chr6:133613000-133630600	Weak transcription	Cortex derived primary cultured neurospheres	brain
3	chr6:133613000-133655000	Weak transcription	Hela-S3	cervix
4	chr6:133623200-133636200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
5	chr6:133627000-133633200	Weak transcription	Skeletal Muscle Male	skeletal muscle
6	chr6:133627400-133633200	Weak transcription	Psoas Muscle	Psoas
7	chr6:133627600-133637000	Weak transcription	Skeletal Muscle Female	skeletal muscle
8	chr6:133628000-133629000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
9	chr6:133628200-133629800	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
10	chr6:133628400-133630400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
11	chr6:133628800-133630600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

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