Variant report

Variant	rs7728866
Chromosome Location	chr5:164564145-164564146
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 67 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:60)

rs_ID	r²[population]
rs10515888	0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10515889	0.93[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1345583	0.83[EUR][1000 genomes]
rs1363109	0.82[EUR][1000 genomes]
rs1363111	0.82[EUR][1000 genomes]
rs1421683	0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1421685	0.88[ASN][1000 genomes]
rs1421691	0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1421702	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1421708	0.81[EUR][1000 genomes]
rs1421709	0.81[EUR][1000 genomes]
rs1421711	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1421712	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1421716	0.83[EUR][1000 genomes]
rs1421717	0.83[EUR][1000 genomes]
rs1582420	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17052756	0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs17072820	0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs17073151	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2052451	0.82[EUR][1000 genomes]
rs2112175	0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2161105	0.82[EUR][1000 genomes]
rs2287655	0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2861092	0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2861094	0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs34368758	0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs34748983	0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4535473	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs55940235	0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs55953354	0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs57398505	0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs60162408	0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs61225023	0.83[EUR][1000 genomes]
rs61649684	0.92[EUR][1000 genomes]
rs66859522	0.83[EUR][1000 genomes]
rs6889618	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs72809516	0.82[EUR][1000 genomes]
rs72809518	0.83[EUR][1000 genomes]
rs72809520	0.83[EUR][1000 genomes]
rs72809532	0.83[EUR][1000 genomes]
rs72809533	0.83[EUR][1000 genomes]
rs72815307	0.86[EUR][1000 genomes]
rs72815312	0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs72815314	0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs72815315	0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs72815316	0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs72815317	0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs72815318	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs72815322	0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs72815324	0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs72815326	0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs72815330	0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs72817557	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs72817562	0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs72817565	0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs72817567	0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs72817568	0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs969901	0.83[EUR][1000 genomes]
rs969902	0.83[EUR][1000 genomes]
rs976199	0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv995060	chr5:163660200-164620500	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv528624	chr5:164319435-164701201	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv1033866	chr5:164419608-164677758	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	nsv1027138	chr5:164563093-164852655	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv537937	chr5:164563093-164852655	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
6	nsv1028006	chr5:164563293-164852516	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
7	nsv537938	chr5:164563293-164852516	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:164557800-164565000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
2	chr5:164557800-164570800	Weak transcription	H1 Cell Line	embryonic stem cell
3	chr5:164558000-164564800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
4	chr5:164558200-164564800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
5	chr5:164558200-164565000	Weak transcription	HUES48 Cell Line	embryonic stem cell
6	chr5:164562200-164564800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
7	chr5:164562800-164564400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
8	chr5:164562800-164565200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
9	chr5:164563000-164564800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
10	chr5:164563000-164564800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
11	chr5:164563200-164564400	Weak transcription	HUES6 Cell Line	embryonic stem cell
12	chr5:164563800-164565200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
13	chr5:164564000-164564200	Enhancers	Primary hematopoietic stem cells short term culture	blood
14	chr5:164564000-164568400	Enhancers	HUES64 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links