Variant report

Variant	rs1237905
Chromosome Location	chr2:168452630-168452631
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 54 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs10177694	0.82[EUR][1000 genomes]
rs10182563	0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10182569	0.85[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10188352	0.87[AFR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10195156	0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10196108	0.87[AFR][1000 genomes];0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1079438	0.87[EUR][1000 genomes]
rs1079439	0.88[EUR][1000 genomes]
rs1079440	0.81[EUR][1000 genomes]
rs10930274	0.88[ASN][1000 genomes]
rs11686950	0.92[AFR][1000 genomes];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1227106	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1227122	0.83[EUR][1000 genomes]
rs1227123	0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1235206	0.83[EUR][1000 genomes]
rs12612088	0.86[EUR][1000 genomes]
rs13398335	0.87[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs13427510	0.91[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1367918	0.92[AFR][1000 genomes];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1367919	0.81[EUR][1000 genomes]
rs1367921	0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1431896	0.91[AFR][1000 genomes];0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1431901	0.80[EUR][1000 genomes]
rs1431903	0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1615054	0.80[EUR][1000 genomes]
rs1617451	0.87[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1653383	0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1653385	0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1653432	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1730715	0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1730726	0.89[EUR][1000 genomes]
rs1835745	0.91[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs1852904	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2464039	0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4667958	0.82[EUR][1000 genomes]
rs4667959	0.82[EUR][1000 genomes]
rs6433003	0.81[AFR][1000 genomes]
rs6743050	0.97[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73013367	0.85[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs73013383	0.97[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs73026084	0.85[AFR][1000 genomes];0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs734283	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs734284	0.88[EUR][1000 genomes]
rs735424	0.88[EUR][1000 genomes]
rs7576381	0.87[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7590728	0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs891741	0.88[EUR][1000 genomes]
rs891742	0.88[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	nsv491872	chr2:168220323-168737986	ZNF genes & repeats Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv834449	chr2:168340043-168511856	Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
3	nsv583592	chr2:168356232-168721539	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv1008206	chr2:168401249-168452887	ZNF genes & repeats Weak transcription Active TSS Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Genic enhancers	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
5	nsv583593	chr2:168402224-168452630	Weak transcription Flanking Active TSS ZNF genes & repeats Enhancers Active TSS Genic enhancers Strong transcription Bivalent Enhancer	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
6	nsv1004326	chr2:168403386-168452887	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Genic enhancers	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:168451600-168453000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
2	chr2:168451800-168458000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
3	chr2:168452400-168452800	Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
4	chr2:168452400-168452800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
5	chr2:168452400-168452800	Active TSS	Pancreatic Islets	Pancreatic Islet
6	chr2:168452600-168452800	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr2:168452600-168453000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
8	chr2:168452600-168463400	Weak transcription	Cortex derived primary cultured neurospheres	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links