Variant report

Variant	rs16973015
Chromosome Location	chr15:42585099-42585100
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:42584658..42587621-chr15:42618841..42621037,2	K562	blood:
2	chr15:42581427..42583072-chr15:42583575..42585107,2	K562	blood:
3	chr15:42565354..42567848-chr15:42584150..42585706,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000103978	Chromatin interaction
ENSG00000214013	Chromatin interaction

Extended variants
information (count: 45 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs16972927	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16972930	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16972969	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16973018	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16973022	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16973177	0.83[EUR][1000 genomes]
rs16973182	0.83[EUR][1000 genomes]
rs16973184	0.83[EUR][1000 genomes]
rs16973188	0.83[EUR][1000 genomes]
rs16973200	1.00[EUR][1000 genomes]
rs16973206	0.83[EUR][1000 genomes]
rs17593	1.00[GIH][hapmap];1.00[TSI][hapmap];0.83[EUR][1000 genomes]
rs28364383	0.83[EUR][1000 genomes]
rs28364387	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28364399	1.00[GIH][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs28364423	1.00[GIH][hapmap];0.84[LWK][hapmap];0.94[MKK][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4307925	0.83[EUR][1000 genomes]
rs4486855	0.83[EUR][1000 genomes]
rs4516202	0.83[EUR][1000 genomes]
rs7167683	1.00[GIH][hapmap];1.00[TSI][hapmap];0.83[EUR][1000 genomes]
rs7174880	0.83[EUR][1000 genomes]
rs728507	0.83[EUR][1000 genomes]
rs728508	0.83[EUR][1000 genomes]
rs728509	0.83[EUR][1000 genomes]
rs728510	1.00[EUR][1000 genomes]
rs8024452	0.83[EUR][1000 genomes]
rs8026890	0.83[EUR][1000 genomes]
rs8027800	0.83[EUR][1000 genomes]
rs8033108	1.00[EUR][1000 genomes]
rs8033734	1.00[GIH][hapmap];1.00[TSI][hapmap];0.83[EUR][1000 genomes]
rs8033882	0.83[EUR][1000 genomes]
rs8033960	0.83[EUR][1000 genomes]
rs8035332	0.83[EUR][1000 genomes]
rs8035521	0.83[EUR][1000 genomes]
rs8038771	0.83[EUR][1000 genomes]
rs8038967	0.83[EUR][1000 genomes]
rs8039470	0.83[EUR][1000 genomes]
rs8040129	0.83[EUR][1000 genomes]
rs8040726	1.00[EUR][1000 genomes]
rs934877	1.00[AMR][1000 genomes];1.00[EUR][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	nsv931223	chr15:41989960-42781757	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	81 gene(s)	inside rSNPs	diseases
2	nsv529687	chr15:42157320-42621682	Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	59 gene(s)	inside rSNPs	diseases
3	nsv1049445	chr15:42239738-42830484	Enhancers Strong transcription Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	73 gene(s)	inside rSNPs	diseases
4	nsv542366	chr15:42239738-42830484	Weak transcription Active TSS Enhancers Strong transcription Bivalent Enhancer Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	73 gene(s)	inside rSNPs	diseases
5	nsv904133	chr15:42528982-42681057	Weak transcription Enhancers Strong transcription ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	32 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:108 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:42567200-42623600	Weak transcription	Fetal Brain Male	brain
2	chr15:42568400-42604600	Weak transcription	NH-A	brain
3	chr15:42568400-42656000	Weak transcription	Small Intestine	intestine
4	chr15:42568600-42585200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
5	chr15:42568600-42587000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
6	chr15:42568600-42587000	Weak transcription	Pancreatic Islets	Pancreatic Islet
7	chr15:42568600-42593000	Weak transcription	HUES64 Cell Line	embryonic stem cell
8	chr15:42568600-42602600	Weak transcription	Fetal Heart	heart
9	chr15:42568600-42630800	Weak transcription	Dnd41	blood
10	chr15:42569000-42591000	Strong transcription	Primary B cells from peripheral blood	blood
11	chr15:42569400-42602800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
12	chr15:42570200-42585600	Strong transcription	Primary B cells from cord blood	blood
13	chr15:42570200-42585800	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
14	chr15:42570200-42586600	Strong transcription	Adipose Nuclei	Adipose
15	chr15:42570600-42586600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
16	chr15:42573400-42635800	Weak transcription	Gastric	stomach
17	chr15:42573600-42587200	Weak transcription	HUES48 Cell Line	embryonic stem cell
18	chr15:42573600-42602600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
19	chr15:42573800-42592000	Weak transcription	Fetal Brain Female	brain
20	chr15:42573800-42605600	Weak transcription	Pancreas	Pancrea
21	chr15:42574200-42586200	Weak transcription	HUES6 Cell Line	embryonic stem cell
22	chr15:42576000-42592400	Strong transcription	Skeletal Muscle Female	skeletal muscle
23	chr15:42576200-42591600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
24	chr15:42576200-42593000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
25	chr15:42576200-42602800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
26	chr15:42576200-42605800	Weak transcription	Esophagus	oesophagus
27	chr15:42576400-42602000	Weak transcription	Colonic Mucosa	Colon
28	chr15:42576400-42620800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
29	chr15:42576600-42585200	Weak transcription	Brain Hippocampus Middle	brain
30	chr15:42577000-42590000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
31	chr15:42577800-42616200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
32	chr15:42578600-42592800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
33	chr15:42578800-42585600	Strong transcription	Brain Inferior Temporal Lobe	brain
34	chr15:42578800-42586600	Strong transcription	Primary T cells fromperipheralblood	blood
35	chr15:42578800-42587200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
36	chr15:42579000-42586800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
37	chr15:42579000-42592400	Strong transcription	Primary monocytes fromperipheralblood	blood
38	chr15:42579000-42592400	Strong transcription	Monocytes-CD14+_RO01746	blood
39	chr15:42579200-42588200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
40	chr15:42579200-42589800	Weak transcription	Fetal Lung	lung
41	chr15:42579200-42592400	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
42	chr15:42579200-42593400	Weak transcription	Hela-S3	cervix
43	chr15:42579400-42586800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
44	chr15:42579800-42586400	Strong transcription	Primary neutrophils fromperipheralblood	blood
45	chr15:42580000-42585400	Strong transcription	Brain Cingulate Gyrus	brain
46	chr15:42580200-42585600	Strong transcription	Stomach Smooth Muscle	stomach
47	chr15:42580200-42586000	Strong transcription	Duodenum Smooth Muscle	Duodenum
48	chr15:42580200-42586000	Weak transcription	Fetal Intestine Small	intestine
49	chr15:42580400-42586000	Strong transcription	Rectal Mucosa Donor 31	rectum
50	chr15:42580600-42590400	Weak transcription	HepG2	liver

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