Variant report

Variant	rs17439468
Chromosome Location	chr2:50202021-50202022
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 56 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs10495990	1.00[ASW][hapmap];0.84[CEU][hapmap];0.91[CHD][hapmap];0.81[GIH][hapmap];1.00[JPT][hapmap];0.87[LWK][hapmap];0.95[YRI][hapmap]
rs10495991	0.81[CEU][hapmap]
rs10495992	0.81[CEU][hapmap]
rs10495993	0.81[CEU][hapmap]
rs1159136	0.81[CEU][hapmap]
rs1159137	0.81[CEU][hapmap]
rs11887101	0.84[CEU][hapmap]
rs11889551	0.81[CEU][hapmap]
rs11899849	0.81[CEU][hapmap]
rs12615426	0.87[ASW][hapmap];0.96[CEU][hapmap];0.87[CHB][hapmap];0.89[CHD][hapmap];0.81[GIH][hapmap];0.87[JPT][hapmap];0.91[TSI][hapmap];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12620898	0.81[CEU][hapmap]
rs1369294	0.81[CEU][hapmap]
rs1421582	0.81[CEU][hapmap]
rs1421583	0.81[CEU][hapmap]
rs1421584	0.81[CEU][hapmap]
rs1421585	0.81[CEU][hapmap]
rs17441066	0.84[CEU][hapmap]
rs17441242	0.81[CEU][hapmap]
rs17493116	0.81[CEU][hapmap]
rs17493390	0.81[CEU][hapmap]
rs17493439	0.81[CEU][hapmap]
rs17494124	0.81[CEU][hapmap]
rs1865488	0.81[CEU][hapmap]
rs1895126	0.81[CEU][hapmap]
rs1895127	0.81[CEU][hapmap]
rs1897924	1.00[ASW][hapmap];0.92[CEU][hapmap];0.91[CHD][hapmap];0.81[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.92[MKK][hapmap];0.98[TSI][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2193866	0.81[CEU][hapmap]
rs2193867	0.81[CEU][hapmap]
rs2216522	0.81[CEU][hapmap]
rs2351146	0.81[CEU][hapmap]
rs2351148	0.81[CEU][hapmap]
rs2882594	0.81[CEU][hapmap]
rs4404319	0.81[CEU][hapmap]
rs4508640	0.92[CEU][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.91[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs56792051	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs58619206	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs59887674	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6545140	0.84[CEU][hapmap]
rs6719571	0.81[CEU][hapmap]
rs6755887	0.81[CEU][hapmap]
rs7563247	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7563354	0.81[CEU][hapmap];0.82[JPT][hapmap]
rs7565688	0.81[CEU][hapmap]
rs7565706	0.81[CEU][hapmap]
rs7573338	0.81[CEU][hapmap]
rs7590237	0.84[CEU][hapmap]
rs7591097	0.81[CEU][hapmap]
rs7595904	0.84[CEU][hapmap]
rs7603788	0.81[CEU][hapmap]
rs7604126	1.00[CEU][hapmap];0.91[CHD][hapmap];0.81[GIH][hapmap];1.00[JPT][hapmap];0.81[LWK][hapmap];0.94[MEX][hapmap];0.91[MKK][hapmap];1.00[TSI][hapmap];0.82[YRI][hapmap];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9941503	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9941548	0.81[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:4 , 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	nsv932839	chr2:50181785-50225697	Enhancers Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:50200800-50205600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr2:50201200-50205400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
3	chr2:50201600-50205400	Weak transcription	HUES6 Cell Line	embryonic stem cell
4	chr2:50201800-50202200	Enhancers	Brain Anterior Caudate	brain
5	chr2:50201800-50203000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
6	chr2:50201800-50203600	Weak transcription	HUES48 Cell Line	embryonic stem cell
7	chr2:50201800-50205400	Weak transcription	H1 Cell Line	embryonic stem cell
8	chr2:50201800-50205400	Weak transcription	HUES64 Cell Line	embryonic stem cell
9	chr2:50201800-50205400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
10	chr2:50202000-50205400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links