Variant report

Variant	rs16965171
Chromosome Location	chr15:53091175-53091176
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:53088202..53091601-chr15:53093551..53096557,3	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: 20 )
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]
rs16965179	1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17543338	0.80[EUR][1000 genomes]
rs55781920	0.83[AFR][1000 genomes];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[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs8025155	0.93[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:6 , 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	nsv457142	chr15:53041887-53091896	Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Bivalent/Poised TSS Active TSS Weak transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	n/a
4	nsv569427	chr15:53041887-53091896	Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Enhancers Active TSS Flanking Active TSS Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	n/a
5	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
6	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:43 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:53087600-53091400	Bivalent Enhancer	Primary T helper 17 cells PMA-I stimulated	--
2	chr15:53089400-53091200	Bivalent Enhancer	Cortex derived primary cultured neurospheres	brain
3	chr15:53089400-53091400	Bivalent Enhancer	Primary T cells fromperipheralblood	blood
4	chr15:53089600-53092400	Weak transcription	Pancreas	Pancrea
5	chr15:53089800-53091200	Bivalent Enhancer	Primary T helper memory cells from peripheral blood 2	blood
6	chr15:53089800-53091200	Bivalent Enhancer	Primary T helper memory cells from peripheral blood 1	blood
7	chr15:53089800-53091400	Flanking Bivalent TSS/Enh	iPS-18 Cell Line	embryonic stem cell
8	chr15:53089800-53091400	Bivalent Enhancer	Primary T killer memory cells from peripheral blood	blood
9	chr15:53089800-53091800	Bivalent Enhancer	Primary T helper cells PMA-I stimulated	--
10	chr15:53089800-53091800	Bivalent Enhancer	Primary T cells effector/memory enriched fromperipheralblood	blood
11	chr15:53089800-53091800	Bivalent Enhancer	Primary T killer naive cells fromperipheralblood	blood
12	chr15:53090000-53091200	Bivalent Enhancer	Adipose Nuclei	Adipose
13	chr15:53090000-53091400	Bivalent Enhancer	Foreskin Melanocyte Primary Cells skin03	Skin
14	chr15:53090000-53091800	Bivalent Enhancer	Primary T helper naive cells fromperipheralblood	blood
15	chr15:53090200-53091200	Bivalent Enhancer	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr15:53090200-53091200	Bivalent Enhancer	Fetal Muscle Trunk	muscle
17	chr15:53090200-53091400	Flanking Bivalent TSS/Enh	H1 Cell Line	embryonic stem cell
18	chr15:53090200-53091400	Bivalent Enhancer	H1 Derived Mesenchymal Stem Cells	ES cell derived
19	chr15:53090200-53091400	Bivalent/Poised TSS	H9 Cell Line	embryonic stem cell
20	chr15:53090200-53091400	Flanking Bivalent TSS/Enh	iPS DF 19.11 Cell Line	embryonic stem cell
21	chr15:53090200-53091400	Flanking Bivalent TSS/Enh	ES-UCSF4 Cell Line	embryonic stem cell
22	chr15:53090200-53091600	Flanking Bivalent TSS/Enh	HUES48 Cell Line	embryonic stem cell
23	chr15:53090400-53091200	Bivalent Enhancer	Psoas Muscle	Psoas
24	chr15:53090400-53091400	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell
25	chr15:53090600-53091200	Bivalent Enhancer	Lung	lung
26	chr15:53090600-53091200	Bivalent Enhancer	Dnd41	blood
27	chr15:53090600-53091400	Bivalent Enhancer	Spleen	Spleen
28	chr15:53090800-53091200	Bivalent/Poised TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
29	chr15:53090800-53091200	Bivalent/Poised TSS	iPS-20b Cell Line	embryonic stem cell
30	chr15:53090800-53091200	Bivalent Enhancer	Primary T cells from cord blood	blood
31	chr15:53090800-53091200	Bivalent Enhancer	Primary hematopoietic stem cells G-CSF-mobilized Male	--
32	chr15:53090800-53091200	Enhancers	Right Atrium	heart
33	chr15:53090800-53091400	Bivalent/Poised TSS	ES-I3 Cell Line	embryonic stem cell
34	chr15:53090800-53091800	Bivalent Enhancer	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
35	chr15:53090800-53092800	Bivalent Enhancer	HepG2	liver
36	chr15:53091000-53091200	Bivalent Enhancer	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
37	chr15:53091000-53091200	Bivalent Enhancer	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
38	chr15:53091000-53091200	Flanking Bivalent TSS/Enh	iPS DF 6.9 Cell Line	embryonic stem cell
39	chr15:53091000-53091200	Flanking Bivalent TSS/Enh	Right Ventricle	heart
40	chr15:53091000-53091200	Bivalent Enhancer	Stomach Smooth Muscle	stomach
41	chr15:53091000-53091400	Flanking Bivalent TSS/Enh	HUES6 Cell Line	embryonic stem cell
42	chr15:53091000-53091400	Bivalent/Poised TSS	HUES64 Cell Line	embryonic stem cell
43	chr15:53091000-53091400	Flanking Active TSS	Liver	Liver

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