Variant report

Variant	rs6878775
Chromosome Location	chr5:15913204-15913205
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 68 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:62)

rs_ID	r²[population]
rs10042283	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10520829	0.95[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10520830	1.00[CEU][hapmap];0.94[CHB][hapmap];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10520831	1.00[CEU][hapmap];0.94[CHB][hapmap];0.94[JPT][hapmap];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11749742	0.87[CEU][hapmap];0.89[CHB][hapmap]
rs12186586	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs12188160	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs12188594	1.00[CEU][hapmap];0.94[CHB][hapmap];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs12517809	1.00[CEU][hapmap];0.94[JPT][hapmap];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12653963	1.00[CEU][hapmap];0.94[CHB][hapmap];0.94[JPT][hapmap];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs13153362	1.00[CEU][hapmap];0.94[CHB][hapmap];0.93[JPT][hapmap];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13154254	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs13164363	1.00[CEU][hapmap];0.94[CHB][hapmap];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs13189148	0.82[CEU][hapmap];0.86[EUR][1000 genomes]
rs146351	0.83[CEU][hapmap]
rs1505031	0.91[CEU][hapmap];0.82[CHB][hapmap]
rs187705	0.83[CEU][hapmap]
rs257734	0.87[CEU][hapmap];0.82[CHB][hapmap]
rs257735	0.87[CEU][hapmap]
rs257736	0.87[CEU][hapmap]
rs257737	0.87[CEU][hapmap]
rs257741	0.87[CEU][hapmap];0.82[CHB][hapmap]
rs257742	0.87[CEU][hapmap];0.82[CHB][hapmap]
rs257744	0.87[CEU][hapmap];0.82[CHB][hapmap]
rs257745	0.91[CEU][hapmap];0.82[CHB][hapmap]
rs257748	0.87[CEU][hapmap]
rs257749	0.82[CEU][hapmap]
rs257752	0.87[CEU][hapmap]
rs257753	0.87[CEU][hapmap]
rs257757	0.87[CEU][hapmap]
rs257758	0.87[CEU][hapmap]
rs257759	0.87[CEU][hapmap]
rs257760	0.86[CEU][hapmap]
rs257761	0.83[CEU][hapmap]
rs257767	0.82[CHB][hapmap]
rs257768	0.87[CEU][hapmap];0.82[CHB][hapmap]
rs257769	0.91[CEU][hapmap];0.82[CHB][hapmap]
rs257772	0.83[CEU][hapmap]
rs257774	0.87[CEU][hapmap]
rs257777	0.83[CEU][hapmap]
rs257778	0.83[CEU][hapmap]
rs365234	0.87[CEU][hapmap]
rs366760	0.87[CEU][hapmap]
rs389804	0.87[CEU][hapmap]
rs3935972	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs399259	0.84[CEU][hapmap]
rs406819	0.84[CEU][hapmap]
rs407717	0.83[CEU][hapmap]
rs415718	0.87[CEU][hapmap]
rs416952	0.87[CEU][hapmap]
rs422958	0.83[CEU][hapmap]
rs434475	0.83[CEU][hapmap]
rs4410637	0.95[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs55742366	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6870163	0.88[CEU][hapmap];0.82[CHB][hapmap]
rs6874587	1.00[CEU][hapmap];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6876718	1.00[CEU][hapmap];0.94[CHB][hapmap];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6878591	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6886664	0.83[CEU][hapmap];0.87[EUR][1000 genomes]
rs6887439	0.87[EUR][1000 genomes]
rs6888294	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6892388	0.95[CEU][hapmap];0.94[CHB][hapmap];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv880755	chr5:15670377-15938553	Weak transcription Flanking Active TSS Enhancers Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	4 gene(s)	inside rSNPs	diseases
2	nsv1031483	chr5:15738485-15926083	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Genic enhancers	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
3	nsv461986	chr5:15854098-15943683	Enhancers Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region miRNA	2 gene(s)	inside rSNPs	diseases
4	nsv597292	chr5:15854098-15943683	Enhancers Weak transcription Active TSS ZNF genes & repeats Strong transcription Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region miRNA	2 gene(s)	inside rSNPs	diseases
5	nsv830216	chr5:15860662-16060420	Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region miRNA	4 gene(s)	inside rSNPs	diseases
6	nsv427712	chr5:15883439-16055856	Enhancers Weak transcription ZNF genes & repeats Genic enhancers Strong transcription Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region miRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:15900200-15915400	Weak transcription	Small Intestine	intestine
2	chr5:15912600-15914000	Enhancers	HUES48 Cell Line	embryonic stem cell
3	chr5:15912800-15913400	Enhancers	Fetal Lung	lung
4	chr5:15912800-15913800	Enhancers	iPS-18 Cell Line	embryonic stem cell
5	chr5:15913000-15913400	Enhancers	iPS-15b Cell Line	embryonic stem cell
6	chr5:15913000-15914000	Enhancers	HUES64 Cell Line	embryonic stem cell
7	chr5:15913000-15914000	Enhancers	Fetal Heart	heart
8	chr5:15913000-15915600	Enhancers	Fetal Stomach	stomach
9	chr5:15913200-15913400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
10	chr5:15913200-15913800	Weak transcription	H1 Cell Line	embryonic stem cell
11	chr5:15913200-15918400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
12	chr5:15913200-15918600	Weak transcription	HUES6 Cell Line	embryonic stem cell

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