Variant report

Variant	rs73121857
Chromosome Location	chr4:16304456-16304457
allele	C/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	POLR2A	chr4:16304279-16304476	MCF10A-Er-Src	breast:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:16303049..16305421-chr4:16362564..16364897,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000248851	TF binding region
ENSG00000249506	Chromatin interaction

Extended variants
information (count: 55 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs10489057	0.96[EUR][1000 genomes]
rs10489065	0.81[ASN][1000 genomes]
rs11721706	0.94[EUR][1000 genomes]
rs11722358	0.96[EUR][1000 genomes]
rs11722711	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11735255	0.96[EUR][1000 genomes]
rs11735313	0.93[EUR][1000 genomes]
rs11736850	0.97[EUR][1000 genomes]
rs11945394	0.96[EUR][1000 genomes]
rs1472572	0.95[EUR][1000 genomes]
rs16893218	0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16893239	0.96[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16893257	0.98[EUR][1000 genomes]
rs16893316	0.96[EUR][1000 genomes]
rs16893388	0.81[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs16893404	0.96[EUR][1000 genomes]
rs16893419	0.93[EUR][1000 genomes]
rs17563625	0.81[ASN][1000 genomes]
rs1860821	0.96[EUR][1000 genomes]
rs2041540	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2072437	0.95[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28566142	0.95[EUR][1000 genomes]
rs28650994	0.95[EUR][1000 genomes]
rs28659920	0.96[EUR][1000 genomes]
rs2940	0.96[EUR][1000 genomes]
rs41447446	0.96[EUR][1000 genomes]
rs57653099	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs57773089	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs59486353	0.97[EUR][1000 genomes]
rs59502099	0.97[EUR][1000 genomes]
rs60788991	0.96[EUR][1000 genomes]
rs6449231	0.96[EUR][1000 genomes]
rs67922017	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6815561	0.96[EUR][1000 genomes]
rs6830484	0.93[EUR][1000 genomes]
rs6830697	0.94[EUR][1000 genomes]
rs6844412	0.96[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6846948	0.98[EUR][1000 genomes]
rs73118069	0.94[AFR][1000 genomes];0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73118071	0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73127513	0.96[EUR][1000 genomes]
rs73127519	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73127521	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73127531	0.96[EUR][1000 genomes]
rs73127547	0.95[EUR][1000 genomes]
rs73127555	0.86[EUR][1000 genomes]
rs73798733	0.96[EUR][1000 genomes]
rs7660573	0.96[EUR][1000 genomes]
rs7673330	0.98[EUR][1000 genomes]
rs7689789	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][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	nsv1004821	chr4:16055996-16830629	Enhancers Flanking Active TSS Weak transcription Strong transcription Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
2	nsv537046	chr4:16055996-16830629	Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Weak transcription Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
3	nsv537047	chr4:16182060-16375787	Strong transcription Weak transcription Active TSS Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
4	nsv537048	chr4:16226406-16375787	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
5	esv3339701	chr4:16302754-16307052	Bivalent/Poised TSS Enhancers Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	2 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	chr4:16304200-16304800	Enhancers	ES-I3 Cell Line	embryonic stem cell
2	chr4:16304200-16305000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
3	chr4:16304400-16305000	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr4:16304400-16305000	Bivalent Enhancer	ES-UCSF4 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links