Variant report

Variant	rs28758601
Chromosome Location	chr4:143533337-143533338
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr4:143388945..143399475-chr4:143525396..143540220,51	MCF-7	breast:
2	chr4:143517583..143519363-chr4:143531947..143533468,2	MCF-7	breast:
3	chr4:143491099..143492665-chr4:143531903..143533595,2	MCF-7	breast:
4	chr4:143387939..143398265-chr4:143528932..143544358,55	MCF-7	breast:

Variant related genes	Relation type
ENSG00000109452	Chromatin interaction

Extended variants
information (count: 34 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs10000770	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10006418	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10015404	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10020322	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10020865	0.91[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs11723318	0.84[ASN][1000 genomes]
rs13103597	0.86[AMR][1000 genomes]
rs13114437	0.86[AMR][1000 genomes]
rs13137056	0.84[ASN][1000 genomes]
rs13353799	0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1348362	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1348363	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs28415364	0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28485272	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs28673920	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs28733118	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34082059	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs34234953	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34393544	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs34626802	0.86[EUR][1000 genomes]
rs34699252	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35255414	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35366693	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs36101393	0.91[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs36142547	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs60361448	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs62330251	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62331862	0.83[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6834451	0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6849164	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6856817	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[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	nsv461660	chr4:143437219-143538179	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	nsv595605	chr4:143437219-143538179	Weak transcription Enhancers Flanking Active TSS Active TSS Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv830101	chr4:143518810-143684392	ZNF genes & repeats Enhancers Flanking Active TSS Weak transcription Strong transcription Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Active TSS	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:143517400-143539400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
2	chr4:143520000-143536000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
3	chr4:143525600-143535200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr4:143527000-143536200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
5	chr4:143530800-143534400	Weak transcription	Stomach Smooth Muscle	stomach
6	chr4:143531200-143538600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
7	chr4:143531800-143536800	Weak transcription	Left Ventricle	heart
8	chr4:143532200-143534400	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
9	chr4:143532600-143533400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
10	chr4:143532600-143533600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
11	chr4:143532600-143534000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
12	chr4:143532600-143540200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
13	chr4:143533000-143535000	Weak transcription	Primary T cells fromperipheralblood	blood
14	chr4:143533200-143533800	ZNF genes & repeats	Primary T helper cells fromperipheralblood	blood
15	chr4:143533200-143533800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
16	chr4:143533200-143534000	ZNF genes & repeats	Primary T regulatory cells fromperipheralblood	blood
17	chr4:143533200-143535400	ZNF genes & repeats	Primary T helper cells PMA-I stimulated	--

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