Variant report

Variant	rs1516198
Chromosome Location	chr2:51889019-51889020
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	2:51664217-51674289..2:51887872-51889464	H1-hESC	embryonic stem cell:	embryo

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

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs11125367	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1119247	0.81[EUR][1000 genomes]
rs11563020	0.85[EUR][1000 genomes]
rs11563268	0.84[ASN][1000 genomes]
rs12105026	0.94[AFR][1000 genomes];0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13423007	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1400101	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1400104	0.82[ASN][1000 genomes]
rs1400105	0.94[ASN][1000 genomes]
rs1516176	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1516177	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1516182	0.95[ASN][1000 genomes]
rs1516197	0.86[EUR][1000 genomes]
rs17864557	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs17864571	0.84[EUR][1000 genomes]
rs17864608	0.83[CHB][hapmap]
rs2354385	0.81[EUR][1000 genomes]
rs2883571	0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4971756	0.95[ASN][1000 genomes]
rs6708818	0.83[CHB][hapmap]
rs6739137	0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6758434	0.84[ASN][1000 genomes]
rs952893	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs966734	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[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	nsv1001552	chr2:51225970-52139741	Active TSS Weak transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	nsv535708	chr2:51225970-52139741	Enhancers Bivalent Enhancer Active TSS Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv874069	chr2:51723107-52006583	Flanking Active TSS Enhancers Active TSS Weak transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	nsv1011738	chr2:51731251-51976068	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv527776	chr2:51876663-51898276	Flanking Active TSS Weak transcription Enhancers Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
6	nsv581887	chr2:51883456-51927714	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
7	nsv874072	chr2:51883456-51928042	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:51888400-51891800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr2:51888600-51889200	Enhancers	iPS-20b Cell Line	embryonic stem cell
3	chr2:51888800-51889200	Active TSS	ES-I3 Cell Line	embryonic stem cell
4	chr2:51888800-51889600	Enhancers	H9 Cell Line	embryonic stem cell
5	chr2:51889000-51889400	Flanking Active TSS	HUES6 Cell Line	embryonic stem cell
6	chr2:51889000-51889400	Flanking Active TSS	HUES64 Cell Line	embryonic stem cell
7	chr2:51889000-51889400	Flanking Active TSS	iPS-18 Cell Line	embryonic stem cell
8	chr2:51889000-51889800	Flanking Active TSS	HUES48 Cell Line	embryonic stem cell
9	chr2:51889000-51891200	Enhancers	iPS-15b Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links