Variant report

Variant	rs1340688
Chromosome Location	chr1:76520630-76520631
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs10493577	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10873864	0.83[EUR][1000 genomes]
rs11162069	0.83[EUR][1000 genomes]
rs1146658	0.87[CEU][hapmap]
rs1146659	0.87[CEU][hapmap]
rs11803060	1.00[CHB][hapmap]
rs11803647	1.00[CHB][hapmap]
rs11808413	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1251468	0.86[CEU][hapmap]
rs1251472	0.86[ASN][1000 genomes]
rs1251493	0.96[EUR][1000 genomes]
rs1251497	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1251498	0.86[EUR][1000 genomes]
rs1251523	0.88[EUR][1000 genomes]
rs1251524	0.88[EUR][1000 genomes]
rs1251525	0.88[EUR][1000 genomes]
rs1251527	0.88[EUR][1000 genomes]
rs12756159	0.83[EUR][1000 genomes]
rs1370715	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17097922	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17097929	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17097968	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17097983	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17097997	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17098064	1.00[CHB][hapmap]
rs1866254	0.83[EUR][1000 genomes]
rs1890968	1.00[CHB][hapmap]
rs1934815	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1934817	0.83[EUR][1000 genomes]
rs2118530	0.83[EUR][1000 genomes]
rs2153544	0.83[EUR][1000 genomes]
rs291074	1.00[CHB][hapmap];0.86[ASN][1000 genomes]
rs3179693	0.81[EUR][1000 genomes]
rs58963591	0.83[ASN][1000 genomes]
rs61771293	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6672844	0.83[EUR][1000 genomes]
rs6703034	0.83[EUR][1000 genomes]
rs7533088	0.83[EUR][1000 genomes]

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	nsv998499	chr1:76361784-76598712	Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	esv2754129	chr1:76489579-76529279	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
3	nsv870968	chr1:76490234-76552475	Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Weak transcription Active TSS Enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
4	nsv947186	chr1:76512447-76530843	Enhancers Weak transcription Flanking Active TSS Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
5	nsv1477	chr1:76515963-76534339	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

No data

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:76517600-76521400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
2	chr1:76519200-76521200	Weak transcription	H9 Cell Line	embryonic stem cell
3	chr1:76519200-76524600	Weak transcription	Brain Hippocampus Middle	brain
4	chr1:76519200-76524600	Weak transcription	Brain Substantia Nigra	brain
5	chr1:76519400-76521200	Weak transcription	H1 Cell Line	embryonic stem cell
6	chr1:76519400-76521200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr1:76519400-76521200	Weak transcription	HUES64 Cell Line	embryonic stem cell
8	chr1:76519400-76521200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
9	chr1:76519400-76521600	Weak transcription	HUES48 Cell Line	embryonic stem cell
10	chr1:76519400-76524800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
11	chr1:76519600-76521200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
12	chr1:76519600-76524800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
13	chr1:76520000-76521400	Weak transcription	Fetal Stomach	stomach
14	chr1:76520600-76520800	Enhancers	Placenta Amnion	Placenta Amnion

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links