Variant report

Variant	rs12405357
Chromosome Location	chr1:75861616-75861617
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 73 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:68)

rs_ID	r²[population]
rs10493560	1.00[CHB][hapmap]
rs10493563	1.00[CHB][hapmap]
rs10493567	1.00[CHB][hapmap]
rs10493568	1.00[CHB][hapmap]
rs10493572	1.00[CHB][hapmap];0.90[ASN][1000 genomes]
rs10493574	0.90[ASN][1000 genomes]
rs10493575	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11578532	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12085115	1.00[CHB][hapmap]
rs12087682	1.00[CHB][hapmap]
rs12401888	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12401896	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12408190	1.00[CEU][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12408226	0.95[AMR][1000 genomes];0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12408827	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs12410333	1.00[CEU][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12411159	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1249664	1.00[CHB][hapmap]
rs1249665	0.90[ASN][1000 genomes]
rs1249666	1.00[CHB][hapmap];0.90[ASN][1000 genomes]
rs1249667	1.00[CHB][hapmap];0.90[ASN][1000 genomes]
rs1262045	1.00[CHB][hapmap];0.90[ASN][1000 genomes]
rs1443845	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs17096504	1.00[CHB][hapmap]
rs17096776	1.00[CHB][hapmap];0.90[ASN][1000 genomes]
rs17096782	1.00[CHB][hapmap];0.90[ASN][1000 genomes]
rs17096851	0.95[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17096888	0.95[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17097953	1.00[CHB][hapmap];0.90[ASN][1000 genomes]
rs17097955	1.00[CHB][hapmap];0.90[ASN][1000 genomes]
rs17303788	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs17567259	1.00[CHB][hapmap]
rs17567748	1.00[CHB][hapmap]
rs17581457	0.90[ASN][1000 genomes]
rs17584320	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs17584397	0.95[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17643802	0.90[ASN][1000 genomes]
rs17644957	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs184159	1.00[JPT][hapmap]
rs1857353	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1857354	1.00[CEU][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1858630	0.95[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1858631	0.95[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs190024	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1913118	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1936359	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2024773	1.00[JPT][hapmap]
rs2040079	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2040082	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs211702	1.00[JPT][hapmap]
rs211744	1.00[JPT][hapmap]
rs211752	1.00[JPT][hapmap]
rs211771	1.00[JPT][hapmap]
rs2221458	1.00[CHB][hapmap]
rs2779490	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs3845362	0.91[AMR][1000 genomes]
rs3899859	0.95[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs449394	1.00[JPT][hapmap]
rs4540592	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs4949666	1.00[ASN][1000 genomes]
rs4949855	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs58890548	0.95[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs60194830	0.95[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs74089232	0.95[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs74089237	0.95[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs74089238	0.95[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs74089245	0.95[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs983331	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3368999	chr1:75524762-75933220	Bivalent/Poised TSS Strong transcription Bivalent Enhancer Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv1013952	chr1:75716654-75936048	Weak transcription Flanking Active TSS Active TSS Enhancers ZNF genes & repeats Strong transcription Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
3	nsv535004	chr1:75716654-75936048	ZNF genes & repeats Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
4	nsv1455	chr1:75812377-75864182	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
5	nsv519329	chr1:75830438-76358591	Enhancers Strong transcription Flanking Active TSS Weak transcription Genic enhancers Transcr. at gene 5' and 3' Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs12405357	SLC44A5	cis	Heart Left Ventricle	GTEx

Chromatin state (count:0 , 50 per page) page:

No data

Quick Search:

Input of quick search could be:

dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links