Variant report

Variant	rs7671497
Chromosome Location	chr4:118953935-118953936
allele	G/T
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	chr4:118953921-118954171	MCF10A-Er-Src	breast:	n/a	n/a
2	RFX5	chr4:118953723-118956316	SK-N-SH	brain:	n/a	n/a
3	FOS	chr4:118953865-118954198	MCF10A-Er-Src	breast:	n/a	n/a
4	BACH1	chr4:118953920-118954120	H1-hESC	embryonic stem cell:	n/a	n/a
5	ZNF263	chr4:118953923-118955556	HEK293-T-REx	kidney:	n/a	n/a
6	FOS	chr4:118953868-118954197	MCF10A-Er-Src	breast:	n/a	n/a
7	FOS	chr4:118953915-118954162	MCF10A-Er-Src	breast:	n/a	n/a
8	SMC3	chr4:118953824-118955805	SK-N-SH	brain:	n/a	chr4:118955536-118955550
9	JUND	chr4:118953912-118954201	H1-hESC	embryonic stem cell:	n/a	n/a
10	RAD21	chr4:118953686-118956015	SK-N-SH	brain:	n/a	chr4:118955538-118955547

Variant related genes	Relation type
NDST3	TF binding region

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

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs10009799	1.00[AMR][1000 genomes];0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10009951	0.95[ASN][1000 genomes]
rs10011715	0.97[ASN][1000 genomes]
rs10029850	0.95[ASN][1000 genomes]
rs10440342	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10440399	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10857057	0.96[ASN][1000 genomes]
rs11098420	0.91[ASN][1000 genomes]
rs11731535	0.96[ASN][1000 genomes]
rs12500555	1.00[AMR][1000 genomes];0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13118131	0.97[ASN][1000 genomes]
rs13123909	0.95[ASN][1000 genomes]
rs13133776	0.96[ASN][1000 genomes]
rs1994385	0.95[ASN][1000 genomes]
rs1994386	1.00[AMR][1000 genomes];0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1994387	1.00[AMR][1000 genomes];0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2254204	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2254215	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2254218	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2389488	1.00[AMR][1000 genomes];0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2389489	1.00[AMR][1000 genomes];0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2389494	0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2389495	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.83[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2389497	0.97[ASN][1000 genomes]
rs2389498	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs34514948	0.94[ASN][1000 genomes]
rs6534075	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6534077	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6534078	0.85[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs6534079	0.97[ASN][1000 genomes]
rs6848541	1.00[AMR][1000 genomes];0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6849073	0.95[ASN][1000 genomes]
rs7656160	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs7657704	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs7662255	0.95[ASN][1000 genomes]
rs7687673	0.94[ASN][1000 genomes]
rs7688055	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9307450	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9997797	1.00[AMR][1000 genomes];0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9999038	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.83[EUR][1000 genomes];0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv519017	chr4:118828807-119771481	Strong transcription Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
2	nsv1009076	chr4:118949490-119269424	Enhancers Weak transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
3	nsv1001236	chr4:118949490-119271243	Weak transcription Active TSS Enhancers Genic enhancers Flanking Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 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	chr4:118951000-118954000	Weak transcription	Primary T cells from cord blood	blood
2	chr4:118953600-118954000	Enhancers	Brain Anterior Caudate	brain
3	chr4:118953600-118954000	Enhancers	Fetal Stomach	stomach
4	chr4:118953600-118956800	Active TSS	Brain Inferior Temporal Lobe	brain
5	chr4:118953800-118954000	Bivalent Enhancer	iPS-15b Cell Line	embryonic stem cell
6	chr4:118953800-118954200	Bivalent Enhancer	H1 Cell Line	embryonic stem cell
7	chr4:118953800-118954200	Enhancers	Brain Substantia Nigra	brain
8	chr4:118953800-118954200	Bivalent Enhancer	A549	lung
9	chr4:118953800-118954600	Flanking Active TSS	Dnd41	blood
10	chr4:118953800-118955600	Active TSS	ES-I3 Cell Line	embryonic stem cell
11	chr4:118953800-118956200	Active TSS	Brain Angular Gyrus	brain
12	chr4:118953800-118956400	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links