Variant report

Variant	rs28738720
Chromosome Location	chr14:96948323-96948324
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	FOXA1	chr14:96948263-96948651	HepG2	liver:	n/a	n/a
2	SRF	chr14:96948308-96948502	HepG2	liver:	n/a	chr14:96948398-96948416
3	FOXA1	chr14:96948289-96948561	HepG2	liver:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr14:96948001..96951041-chr14:96966273..96969529,4	MCF-7	breast:
2	chr14:96946909..96948979-chr14:96949809..96951767,2	MCF-7	breast:

Variant related genes	Relation type
AK7	TF binding region
ENSG00000090060	Chromatin interaction
ENSG00000260806	Chromatin interaction

Extended variants
information (count: 44 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs10136266	0.89[EUR][1000 genomes]
rs10136277	0.87[EUR][1000 genomes]
rs10139164	0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10140247	0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10143834	0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10144704	0.84[AFR][1000 genomes];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10467873	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11160341	0.90[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs11160344	0.89[EUR][1000 genomes]
rs11621566	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11621778	0.90[EUR][1000 genomes]
rs11623142	0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11625090	0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11627288	0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11848720	0.85[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11848778	0.85[EUR][1000 genomes]
rs12147439	0.85[EUR][1000 genomes]
rs13329034	0.90[EUR][1000 genomes]
rs13379390	0.90[EUR][1000 genomes]
rs1484251	0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs17094149	0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2274795	0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs28718054	0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2887550	0.90[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs4514608	0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs56184178	0.85[EUR][1000 genomes]
rs58112821	0.85[EUR][1000 genomes]
rs60920648	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs61435932	0.85[AFR][1000 genomes];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs61570427	0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs66881740	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7142806	0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7146883	0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7160148	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs8013517	0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs965950	0.89[EUR][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	nsv1043142	chr14:96096263-96978016	Flanking Active TSS Weak transcription Strong transcription Active TSS Enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	75 gene(s)	inside rSNPs	diseases
2	nsv542177	chr14:96096263-96978016	Enhancers Bivalent Enhancer Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Weak transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	75 gene(s)	inside rSNPs	diseases
3	nsv482589	chr14:96805418-96985830	Flanking Active TSS Active TSS Enhancers Weak transcription Genic enhancers Strong transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	50 gene(s)	inside rSNPs	diseases
4	nsv1042409	chr14:96832303-97115668	Weak transcription Flanking Active TSS Enhancers Bivalent Enhancer Strong transcription Bivalent/Poised TSS Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
5	nsv542178	chr14:96832303-97115668	Active TSS Enhancers Strong transcription Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
6	nsv902211	chr14:96864309-96986153	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	42 gene(s)	inside rSNPs	diseases
7	esv3442210	chr14:96878392-97038700	Weak transcription Flanking Active TSS Strong transcription Enhancers Genic enhancers Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
8	esv1802671	chr14:96942352-97035680	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:96917200-96954800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
2	chr14:96946400-96949400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr14:96947000-96948600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
4	chr14:96947400-96952800	Weak transcription	GM12878-XiMat	blood
5	chr14:96948000-96948800	Enhancers	HepG2	liver
6	chr14:96948200-96948600	Enhancers	Pancreas	Pancrea

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