Variant report

Variant	rs16965179
Chromosome Location	chr15:53093213-53093214
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:53091716..53093481-chr15:53093879..53095531,2	MCF-7	breast:
2	chr15:53078999..53085478-chr15:53088216..53096885,9	MCF-7	breast:

Variant related genes	Relation type
ENSG00000169856	Chromatin interaction

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs1357	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs16965171	1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17543338	0.80[EUR][1000 genomes]
rs55781920	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61735385	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs62023486	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs62023487	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs62023488	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs62023489	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs62023490	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs62023492	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs62023493	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs8025128	1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs8025155	0.87[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv471245	chr15:52607262-53187165	Weak transcription Strong transcription Active TSS Enhancers Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
2	nsv1041421	chr15:52661342-53148286	Flanking Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Bivalent/Poised TSS Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
3	nsv1046970	chr15:53065114-53142386	Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Enhancers Active TSS Genic enhancers ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	n/a
4	nsv569428	chr15:53069874-53140045	Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Enhancers Bivalent/Poised TSS Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:53091400-53094200	Bivalent Enhancer	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr15:53091400-53095400	Bivalent Enhancer	H1 Cell Line	embryonic stem cell
3	chr15:53091400-53095600	Bivalent Enhancer	ES-UCSF4 Cell Line	embryonic stem cell
4	chr15:53091600-53095400	Bivalent Enhancer	HUES48 Cell Line	embryonic stem cell
5	chr15:53092000-53094200	Enhancers	Liver	Liver
6	chr15:53092200-53094200	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell
7	chr15:53092400-53094200	Enhancers	Pancreas	Pancrea
8	chr15:53092600-53093400	Bivalent Enhancer	Primary T helper cells PMA-I stimulated	--
9	chr15:53092600-53093400	Bivalent Enhancer	Skeletal Muscle Male	skeletal muscle
10	chr15:53092600-53093600	Bivalent Enhancer	Cortex derived primary cultured neurospheres	brain
11	chr15:53092600-53093800	Bivalent Enhancer	Primary T helper naive cells fromperipheralblood	blood
12	chr15:53092800-53093400	Bivalent Enhancer	Brain Germinal Matrix	brain
13	chr15:53092800-53093600	Bivalent/Poised TSS	ES-I3 Cell Line	embryonic stem cell
14	chr15:53092800-53093600	Bivalent/Poised TSS	Primary T cells from cord blood	blood
15	chr15:53092800-53093800	ZNF genes & repeats	H9 Cell Line	embryonic stem cell
16	chr15:53092800-53094000	Bivalent Enhancer	Fetal Muscle Trunk	muscle
17	chr15:53093000-53093400	Bivalent Enhancer	Adipose Nuclei	Adipose
18	chr15:53093000-53093600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
19	chr15:53093000-53093800	Bivalent Enhancer	Primary T cells fromperipheralblood	blood
20	chr15:53093200-53093400	Bivalent Enhancer	iPS-18 Cell Line	embryonic stem cell
21	chr15:53093200-53093400	Bivalent Enhancer	Primary T helper memory cells from peripheral blood 1	blood
22	chr15:53093200-53093400	Bivalent Enhancer	Primary T killer naive cells fromperipheralblood	blood
23	chr15:53093200-53093400	Bivalent Enhancer	Fetal Brain Female	brain
24	chr15:53093200-53093400	Bivalent Enhancer	Right Ventricle	heart

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links