Variant report

Variant	rs4610193
Chromosome Location	chr3:145972894-145972895
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	FOS	chr3:145972799-145973205	HUVEC	blood vessel:	n/a	chr3:145972951-145972962 chr3:145972952-145972961 chr3:145972953-145972961 chr3:145972954-145972961
2	FOS	chr3:145972883-145973087	MCF10A-Er-Src	breast:	n/a	chr3:145972951-145972962 chr3:145972952-145972961 chr3:145972953-145972961 chr3:145972954-145972961
3	FOS	chr3:145972784-145973096	MCF10A-Er-Src	breast:	n/a	chr3:145972951-145972962 chr3:145972952-145972961 chr3:145972953-145972961 chr3:145972954-145972961
4	FOS	chr3:145972775-145973084	MCF10A-Er-Src	breast:	n/a	chr3:145972951-145972962 chr3:145972952-145972961 chr3:145972953-145972961 chr3:145972954-145972961
5	FOS	chr3:145972787-145973095	MCF10A-Er-Src	breast:	n/a	chr3:145972951-145972962 chr3:145972952-145972961 chr3:145972953-145972961 chr3:145972954-145972961
6	MAFK	chr3:145972882-145973051	HepG2	liver:	n/a	chr3:145972951-145972961 chr3:145972951-145972960
7	JUND	chr3:145972806-145973098	HepG2	liver:	n/a	chr3:145972951-145972962 chr3:145972952-145972961 chr3:145972953-145972961 chr3:145972954-145972961

Variant related genes	Relation type
PLSCR4	TF binding region

Extended variants
information (count: 65 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:57)

rs_ID	r²[population]
rs10222588	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10804710	0.81[AMR][1000 genomes]
rs10935614	0.81[AMR][1000 genomes]
rs10935615	0.82[AMR][1000 genomes]
rs10935616	0.81[AMR][1000 genomes]
rs11709096	0.81[AMR][1000 genomes]
rs11919011	0.81[AMR][1000 genomes]
rs11926517	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12632757	0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12633074	0.80[ASN][1000 genomes]
rs1398122	0.82[ASN][1000 genomes]
rs1398125	0.91[ASN][1000 genomes]
rs1512078	0.81[AMR][1000 genomes]
rs1512079	0.82[AMR][1000 genomes]
rs1512080	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1512081	0.80[ASN][1000 genomes]
rs1606434	0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2175545	0.80[ASN][1000 genomes]
rs2867081	0.81[AMR][1000 genomes]
rs2867082	0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2867083	0.81[AMR][1000 genomes]
rs2867084	0.87[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs4475004	0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4488802	0.81[AMR][1000 genomes]
rs4681306	0.85[AMR][1000 genomes]
rs4681307	0.84[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs4681308	0.82[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs4681310	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6770057	0.83[ASN][1000 genomes]
rs6775520	0.91[ASN][1000 genomes]
rs6792732	0.80[ASN][1000 genomes]
rs6800307	0.91[ASN][1000 genomes]
rs6805377	0.80[ASN][1000 genomes]
rs7430290	0.80[ASN][1000 genomes]
rs7621841	0.82[AMR][1000 genomes]
rs7634568	0.80[ASN][1000 genomes]
rs7643778	0.82[AMR][1000 genomes]
rs925464	0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9289719	0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9813122	0.82[AMR][1000 genomes]
rs9825776	0.81[AMR][1000 genomes]
rs9826132	0.81[AMR][1000 genomes]
rs9826360	0.81[AMR][1000 genomes]
rs9826591	0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9830892	0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9836419	0.87[ASN][1000 genomes]
rs9838866	0.80[ASN][1000 genomes]
rs9845890	0.81[AMR][1000 genomes]
rs9851511	0.82[AMR][1000 genomes]
rs9855695	0.82[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs9858823	0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9859273	0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9863647	0.80[ASN][1000 genomes]
rs9867851	0.82[AMR][1000 genomes]
rs9873891	0.87[ASN][1000 genomes]
rs9875799	0.82[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs9881755	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv877614	chr3:145903426-146025896	ZNF genes & repeats Weak transcription Bivalent/Poised TSS Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA target site	4 gene(s)	inside rSNPs	diseases
2	nsv877615	chr3:145910430-145988231	ZNF genes & repeats Enhancers Weak transcription Bivalent/Poised TSS Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA target site	2 gene(s)	inside rSNPs	diseases
3	nsv877616	chr3:145921954-145983688	Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
4	esv3333601	chr3:145940702-146068210	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
5	esv3416330	chr3:145941029-146068457	Enhancers Weak transcription Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
6	esv3452197	chr3:145950303-145974111	Bivalent/Poised TSS Active TSS Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	n/a
7	esv3333990	chr3:145950303-145982133	ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	n/a
8	nsv998388	chr3:145960954-146087749	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:145969200-145974600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
2	chr3:145969200-145974800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
3	chr3:145971600-145974600	Weak transcription	Cortex derived primary cultured neurospheres	brain
4	chr3:145972600-145973600	Weak transcription	ES-I3 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links