Variant report

Variant	rs4142118
Chromosome Location	chr6:39380571-39380572
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:39380506..39382532-chr6:39384473..39386042,2	K562	blood:

Extended variants
information (count: 41 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs10807207	0.94[CHB][hapmap];0.88[ASN][1000 genomes]
rs10947809	0.95[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs10947810	0.95[CHB][hapmap];0.88[ASN][1000 genomes]
rs10947811	0.95[CHB][hapmap];0.86[ASN][1000 genomes]
rs1106961	1.00[CHB][hapmap];0.91[JPT][hapmap];0.96[ASN][1000 genomes]
rs12527811	0.87[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs1328383	1.00[CHB][hapmap];0.90[ASN][1000 genomes]
rs1328388	1.00[CHB][hapmap];0.87[ASN][1000 genomes]
rs1328389	1.00[CHB][hapmap];0.91[ASN][1000 genomes]
rs1328390	0.89[ASN][1000 genomes]
rs1887713	1.00[CHB][hapmap];0.92[ASN][1000 genomes]
rs1999045	1.00[CHB][hapmap];0.90[JPT][hapmap];0.96[ASN][1000 genomes]
rs4142117	0.95[CHB][hapmap];0.86[ASN][1000 genomes]
rs4392720	1.00[CHB][hapmap];0.86[ASN][1000 genomes]
rs4714250	0.94[CHB][hapmap];0.90[JPT][hapmap];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4714251	1.00[CEU][hapmap];0.95[CHB][hapmap];0.90[JPT][hapmap];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs59974812	0.91[AFR][1000 genomes]
rs6458114	0.85[ASN][1000 genomes]
rs6458115	0.95[CHB][hapmap];0.85[ASN][1000 genomes]
rs6900629	0.95[CHB][hapmap];0.85[ASN][1000 genomes]
rs6908396	0.95[CHB][hapmap]
rs6915826	0.94[AFR][1000 genomes]
rs72850620	0.96[ASN][1000 genomes]
rs7759557	0.87[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.96[ASN][1000 genomes]
rs9349120	0.87[CEU][hapmap]
rs9367004	0.85[CEU][hapmap];0.94[CHB][hapmap];0.81[JPT][hapmap];0.96[ASN][1000 genomes]
rs9367005	1.00[CHB][hapmap];0.81[JPT][hapmap];0.96[ASN][1000 genomes]
rs9367006	1.00[CEU][hapmap];0.95[CHB][hapmap];0.90[JPT][hapmap];0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9369114	1.00[CHB][hapmap];0.90[ASN][1000 genomes]
rs9380860	0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9394591	0.95[CHB][hapmap];0.87[ASN][1000 genomes]
rs9462543	0.95[CHB][hapmap];0.90[JPT][hapmap];0.94[ASN][1000 genomes]
rs9471089	0.96[ASN][1000 genomes]
rs9471090	1.00[CHB][hapmap];0.90[ASN][1000 genomes]
rs9471092	1.00[CHB][hapmap];0.90[ASN][1000 genomes]
rs9471097	0.95[CHB][hapmap];0.89[ASN][1000 genomes]
rs9471098	0.95[CHB][hapmap];0.89[ASN][1000 genomes]
rs9968787	0.92[YRI][hapmap];0.83[AFR][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	nsv830645	chr6:39227601-39408310	Enhancers Weak transcription Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	nsv533806	chr6:39270073-39397337	Enhancers Bivalent Enhancer Weak transcription Bivalent/Poised TSS Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv885822	chr6:39327708-39721216	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:39379600-39383200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr6:39379600-39383800	Weak transcription	Brain Anterior Caudate	brain
3	chr6:39379800-39383200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
4	chr6:39379800-39383800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
5	chr6:39379800-39383800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
6	chr6:39379800-39383800	Weak transcription	Brain Cingulate Gyrus	brain
7	chr6:39379800-39383800	Weak transcription	Brain Hippocampus Middle	brain
8	chr6:39379800-39383800	Weak transcription	NHDF-Ad	bronchial
9	chr6:39379800-39384000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
10	chr6:39380000-39383600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
11	chr6:39380000-39383800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
12	chr6:39380000-39383800	Weak transcription	Brain Substantia Nigra	brain
13	chr6:39380000-39384000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
14	chr6:39380000-39387600	Weak transcription	Brain Angular Gyrus	brain
15	chr6:39380200-39383400	Weak transcription	HMEC	breast
16	chr6:39380200-39383800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
17	chr6:39380200-39383800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
18	chr6:39380200-39384000	Weak transcription	Brain Inferior Temporal Lobe	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links