Variant report

Variant	rs2678229
Chromosome Location	chr2:50388887-50388888
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs10185952	0.81[CHB][hapmap];1.00[JPT][hapmap]
rs10197877	0.98[AFR][1000 genomes];0.91[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs13031235	0.81[CEU][hapmap];0.91[CHB][hapmap];0.86[JPT][hapmap]
rs1377234	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs1377239	0.89[ASN][1000 genomes]
rs1452782	0.87[AMR][1000 genomes]
rs1530917	0.87[AMR][1000 genomes]
rs1530918	0.86[AMR][1000 genomes]
rs1715984	1.00[JPT][hapmap]
rs2045005	0.88[CEU][hapmap]
rs2177375	0.80[ASN][1000 genomes]
rs2602002	1.00[CEU][hapmap];0.89[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs2602003	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2678218	0.88[CEU][hapmap];0.90[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs2678221	0.90[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs2688892	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2688893	0.88[CEU][hapmap];0.90[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs4971647	0.83[CEU][hapmap];0.87[AMR][1000 genomes]
rs683475	0.82[CHB][hapmap];0.88[JPT][hapmap]
rs7567914	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7570650	1.00[CEU][hapmap]
rs7593705	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs990024	0.87[CEU][hapmap];0.87[AMR][1000 genomes];0.81[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3388948	chr2:50092667-50602681	Enhancers Weak transcription Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region miRNA target site	4 gene(s)	inside rSNPs	diseases
2	esv3399511	chr2:50092687-50602651	Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region miRNA target site	4 gene(s)	inside rSNPs	diseases
3	nsv934303	chr2:50145598-50412189	Bivalent Enhancer Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region miRNA target site	2 gene(s)	inside rSNPs	diseases
4	nsv932915	chr2:50306630-50628415	Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Enhancers Bivalent/Poised TSS Weak transcription Bivalent Enhancer ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
5	esv2756107	chr2:50307245-50440043	Flanking Active TSS Enhancers Weak transcription Active TSS Strong transcription ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	nsv948833	chr2:50307245-50459077	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	nsv1002344	chr2:50326207-50518933	Active TSS Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
8	nsv535692	chr2:50326207-50518933	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:50388400-50389400	Enhancers	HUES6 Cell Line	embryonic stem cell
2	chr2:50388600-50389400	Enhancers	iPS-18 Cell Line	embryonic stem cell
3	chr2:50388600-50389400	Enhancers	iPS-20b Cell Line	embryonic stem cell
4	chr2:50388800-50389400	Enhancers	HUES48 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links