Variant report

Variant	rs17159616
Chromosome Location	chr5:100139487-100139488
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 42 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs10515265	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10515266	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10515267	1.00[ASN][1000 genomes]
rs1423381	1.00[CEU][hapmap];1.00[GIH][hapmap];0.82[MEX][hapmap];1.00[EUR][1000 genomes]
rs17159344	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17159370	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17159464	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17159467	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17159519	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17159534	0.86[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs17159602	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17159626	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17160705	1.00[CEU][hapmap];0.82[MEX][hapmap];1.00[EUR][1000 genomes]
rs17160732	1.00[CEU][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs17160771	1.00[GIH][hapmap];1.00[JPT][hapmap]
rs17160844	1.00[CEU][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs2544911	1.00[CEU][hapmap];1.00[GIH][hapmap];0.83[MEX][hapmap];1.00[EUR][1000 genomes]
rs2544912	1.00[CEU][hapmap]
rs2544914	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs2544915	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs2544917	1.00[EUR][1000 genomes]
rs2544919	1.00[CEU][hapmap];1.00[GIH][hapmap];0.83[MEX][hapmap];0.87[EUR][1000 genomes]
rs2548272	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs2548277	1.00[CEU][hapmap];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2561524	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs2561525	1.00[CEU][hapmap];0.87[EUR][1000 genomes]
rs2561526	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs2725118	1.00[EUR][1000 genomes]
rs2725123	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs3776165	1.00[CEU][hapmap];1.00[GIH][hapmap];0.83[MEX][hapmap];1.00[EUR][1000 genomes]
rs3776166	1.00[CEU][hapmap];1.00[GIH][hapmap];0.83[MEX][hapmap];0.87[EUR][1000 genomes]
rs3776173	1.00[CEU][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs3857364	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6595534	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.88[MEX][hapmap]
rs6878151	1.00[ASN][1000 genomes]
rs6897681	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73775624	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs768777	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7725476	1.00[ASN][1000 genomes]
rs980901	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1021183	chr5:99625857-100221426	Flanking Active TSS Weak transcription Strong transcription Active TSS Enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	27 gene(s)	inside rSNPs	diseases
2	nsv1023765	chr5:99915011-100733755	Weak transcription Enhancers Bivalent/Poised TSS Strong transcription Active TSS ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	8 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:100138400-100142400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr5:100138400-100142600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
3	chr5:100138800-100143800	Weak transcription	Monocytes-CD14+_RO01746	blood
4	chr5:100139000-100139600	Enhancers	Cortex derived primary cultured neurospheres	brain
5	chr5:100139000-100146400	Weak transcription	Primary B cells from cord blood	blood
6	chr5:100139200-100139600	Enhancers	Primary B cells from peripheral blood	blood
7	chr5:100139200-100139600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
8	chr5:100139400-100154400	Weak transcription	Fetal Lung	lung
9	chr5:100139400-100155400	Weak transcription	Placenta	Placenta

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