Variant report

Variant	rs13144875
Chromosome Location	chr4:55887383-55887384
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 39 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs10018070	0.93[ASN][1000 genomes]
rs13101523	0.80[ASN][1000 genomes]
rs13111963	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs13112551	0.91[ASN][1000 genomes]
rs13142103	0.90[ASN][1000 genomes]
rs13144674	0.80[ASN][1000 genomes]
rs28744674	0.90[ASN][1000 genomes]
rs34227858	0.80[ASN][1000 genomes]
rs4259119	0.93[ASN][1000 genomes]
rs4333248	0.83[ASN][1000 genomes]
rs4457012	0.88[ASN][1000 genomes]
rs4566712	0.91[ASN][1000 genomes]
rs4571397	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4577640	0.80[ASN][1000 genomes]
rs4582210	0.94[ASN][1000 genomes]
rs4864529	0.93[ASN][1000 genomes]
rs4864530	0.93[ASN][1000 genomes]
rs4864949	0.90[ASN][1000 genomes]
rs5018667	0.85[ASN][1000 genomes]
rs57528857	0.87[ASN][1000 genomes]
rs6554225	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6554226	0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6554228	0.90[ASN][1000 genomes]
rs6554229	0.90[ASN][1000 genomes]
rs66459610	0.93[ASN][1000 genomes]
rs66506770	0.93[ASN][1000 genomes]
rs6816847	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6820336	0.88[ASN][1000 genomes]
rs6820371	0.88[ASN][1000 genomes]
rs6844468	0.97[ASN][1000 genomes]
rs6845385	0.88[ASN][1000 genomes]
rs7658751	0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7661259	0.81[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs7677709	0.91[ASN][1000 genomes]
rs7679094	0.91[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	nsv526344	chr4:55522488-56231119	Weak transcription Enhancers Active TSS Bivalent Enhancer Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
2	nsv948758	chr4:55748430-55887962	Enhancers Flanking Active TSS Active TSS Weak transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv829939	chr4:55856771-56005011	Enhancers Flanking Bivalent TSS/Enh Genic enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent/Poised TSS Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
4	nsv432603	chr4:55877236-55970782	Weak transcription Genic enhancers Enhancers Strong transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:55884000-55891200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
2	chr4:55884200-55891000	Weak transcription	HMEC	breast
3	chr4:55884800-55887800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
4	chr4:55885600-55890600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr4:55885600-55891200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
6	chr4:55885800-55887600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
7	chr4:55886400-55893800	Weak transcription	Placenta Amnion	Placenta Amnion
8	chr4:55886800-55887400	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr4:55887000-55887800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
10	chr4:55887200-55887400	Enhancers	iPS-20b Cell Line	embryonic stem cell
11	chr4:55887200-55887600	Enhancers	HUES64 Cell Line	embryonic stem cell
12	chr4:55887200-55887800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell

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