Variant report

Variant	rs17239575
Chromosome Location	chr4:160516090-160516091
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs10003094	0.82[ASN][1000 genomes]
rs11100236	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11100243	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11732099	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12640732	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12645160	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12646752	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12648292	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1393576	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1393583	0.90[ASN][1000 genomes]
rs1502722	0.83[EUR][1000 genomes]
rs1502744	0.82[ASN][1000 genomes]
rs1827465	0.90[ASN][1000 genomes]
rs2000885	0.90[ASN][1000 genomes]
rs2000886	0.94[ASN][1000 genomes]
rs2062765	0.94[ASN][1000 genomes]
rs2088984	0.80[EUR][1000 genomes]
rs28453123	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs55650126	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs55886018	0.82[ASN][1000 genomes]
rs55993310	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs56032650	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs56234927	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs60517538	0.97[AFR][1000 genomes];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs62337276	0.82[ASN][1000 genomes]
rs62339597	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6826002	0.91[AFR][1000 genomes];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6853778	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7654634	0.95[AFR][1000 genomes];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7692467	0.97[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7693162	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs961786	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs961787	0.90[ASN][1000 genomes]
rs998887	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	nsv1015469	chr4:160389277-160841619	Enhancers Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	nsv537316	chr4:160389277-160841619	Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv881205	chr4:160516090-160628006	Enhancers Weak transcription ZNF genes & repeats Strong transcription Active TSS Flanking Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

No data

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:160508600-160526800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
2	chr4:160513400-160517200	Enhancers	iPS-15b Cell Line	embryonic stem cell
3	chr4:160513400-160517400	Enhancers	HUES6 Cell Line	embryonic stem cell
4	chr4:160513600-160516800	Enhancers	iPS-20b Cell Line	embryonic stem cell
5	chr4:160513600-160517400	Enhancers	HUES48 Cell Line	embryonic stem cell
6	chr4:160513600-160517600	Enhancers	iPS-18 Cell Line	embryonic stem cell
7	chr4:160513800-160516200	Enhancers	Hela-S3	cervix
8	chr4:160513800-160517000	Enhancers	HUES64 Cell Line	embryonic stem cell
9	chr4:160514200-160516200	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
10	chr4:160514200-160517400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
11	chr4:160514600-160517000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
12	chr4:160515000-160516400	Enhancers	ES-I3 Cell Line	embryonic stem cell
13	chr4:160515600-160516800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
14	chr4:160516000-160516600	Weak transcription	H1 Cell Line	embryonic stem cell
15	chr4:160516000-160519200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
16	chr4:160516000-160519400	Weak transcription	H9 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links