Variant report

Variant	rs1523889
Chromosome Location	chr2:168263087-168263088
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 95 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:90)

rs_ID	r²[population]
rs10198766	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10803824	0.89[ASN][1000 genomes]
rs10803825	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10930268	0.83[ASN][1000 genomes]
rs10930270	0.86[ASN][1000 genomes]
rs10930271	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1357600	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1357601	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1357604	0.81[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs1357605	0.88[ASN][1000 genomes]
rs1357606	0.88[ASN][1000 genomes]
rs1357607	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1403891	0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1403892	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1403893	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1403895	0.83[ASN][1000 genomes]
rs1403896	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1403897	0.86[ASN][1000 genomes]
rs1403899	0.86[ASN][1000 genomes]
rs1403903	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1478384	0.86[ASN][1000 genomes]
rs1523881	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1523882	0.83[ASN][1000 genomes]
rs1523885	0.87[AFR][1000 genomes];0.94[AMR][1000 genomes]
rs1523886	0.95[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1523887	0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1523888	0.89[ASN][1000 genomes]
rs1568747	0.86[ASN][1000 genomes]
rs1608519	0.86[ASN][1000 genomes]
rs1608520	0.86[ASN][1000 genomes]
rs1880171	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1916744	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1916745	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1916748	0.86[ASN][1000 genomes]
rs1916749	0.86[ASN][1000 genomes]
rs1916750	0.86[ASN][1000 genomes]
rs1916751	0.86[ASN][1000 genomes]
rs2030655	1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2030656	1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2030657	0.83[ASN][1000 genomes]
rs2091100	0.83[AFR][1000 genomes];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2140498	0.88[AMR][1000 genomes]
rs2140499	0.80[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs2140500	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2177442	0.86[ASN][1000 genomes]
rs2204278	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2222504	0.89[ASN][1000 genomes]
rs2263240	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2617365	0.83[ASN][1000 genomes]
rs2617379	0.88[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2617380	0.86[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2617381	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2617383	0.88[ASN][1000 genomes]
rs2617386	0.86[ASN][1000 genomes]
rs2617388	0.86[ASN][1000 genomes]
rs2617400	0.83[ASN][1000 genomes]
rs2689820	0.86[ASN][1000 genomes]
rs2689825	0.81[ASN][1000 genomes]
rs2689827	0.81[ASN][1000 genomes]
rs2689832	0.86[ASN][1000 genomes]
rs2689833	0.86[ASN][1000 genomes]
rs2689838	0.88[AFR][1000 genomes];0.88[AMR][1000 genomes]
rs2689843	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2689845	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2689846	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2689847	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2689848	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2689849	0.95[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2689850	0.95[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2689851	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2689853	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2689854	0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2689855	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2927602	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2949010	0.86[ASN][1000 genomes]
rs4130760	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4363998	0.94[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs59534092	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62194917	0.91[AFR][1000 genomes];0.88[AMR][1000 genomes]
rs6704984	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6725171	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6729570	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6747382	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6756322	0.83[ASN][1000 genomes]
rs6756997	0.94[AMR][1000 genomes]
rs6759323	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6759384	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs73972270	0.86[EUR][1000 genomes]
rs73972274	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs998015	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv875378	chr2:168107491-168297961	Enhancers Weak transcription Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
2	esv3364733	chr2:168109919-168302141	Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Weak transcription Enhancers Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
3	nsv431790	chr2:168217873-168273530	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Strong transcription Active TSS Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
4	nsv491872	chr2:168220323-168737986	ZNF genes & repeats Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
5	esv2760556	chr2:168259049-168283244	Enhancers Genic enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Strong transcription Active TSS	Chromatin interactive region	n/a	inside rSNPs	n/a

No data

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:168261200-168263600	Enhancers	iPS-15b Cell Line	embryonic stem cell
2	chr2:168261400-168266000	Weak transcription	Fetal Brain Male	brain
3	chr2:168261800-168266800	Weak transcription	Cortex derived primary cultured neurospheres	brain
4	chr2:168262200-168263400	Enhancers	H1 Cell Line	embryonic stem cell
5	chr2:168262200-168263400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
6	chr2:168262600-168263200	Flanking Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
7	chr2:168262600-168263200	Flanking Active TSS	HUES48 Cell Line	embryonic stem cell
8	chr2:168262600-168263200	Flanking Active TSS	iPS-18 Cell Line	embryonic stem cell
9	chr2:168262600-168263200	Flanking Active TSS	iPS-20b Cell Line	embryonic stem cell
10	chr2:168262600-168263600	Flanking Active TSS	HUES64 Cell Line	embryonic stem cell
11	chr2:168262600-168264000	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
12	chr2:168262800-168263200	Flanking Active TSS	ES-I3 Cell Line	embryonic stem cell
13	chr2:168262800-168263200	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
14	chr2:168262800-168263200	Flanking Active TSS	HUES6 Cell Line	embryonic stem cell
15	chr2:168262800-168263200	Flanking Active TSS	NH-A	brain
16	chr2:168262800-168263400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr2:168263000-168263400	Enhancers	ES-WA7 Cell Line	embryonic stem cell
18	chr2:168263000-168263400	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
19	chr2:168263000-168263400	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
20	chr2:168263000-168263400	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
21	chr2:168263000-168263600	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
22	chr2:168263000-168263600	ZNF genes & repeats	Ganglion Eminence derived primary cultured neurospheres	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links