Variant report

Variant	rs16964579
Chromosome Location	chr15:52155531-52155532
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs16953082	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16964486	0.85[EUR][1000 genomes]
rs16964505	0.90[EUR][1000 genomes]
rs16964506	0.90[EUR][1000 genomes]
rs16964507	0.90[EUR][1000 genomes]
rs16964508	0.90[EUR][1000 genomes]
rs16964510	0.90[EUR][1000 genomes]
rs16964518	0.90[EUR][1000 genomes]
rs16964528	0.88[EUR][1000 genomes]
rs16964532	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16964555	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16964561	0.82[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16964585	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16964596	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16964639	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16964645	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1991267	0.90[ASN][1000 genomes]
rs2258248	0.90[ASN][1000 genomes]
rs2570232	0.84[EUR][1000 genomes]
rs2570265	0.90[ASN][1000 genomes]
rs2593181	0.90[ASN][1000 genomes]
rs2593184	0.90[ASN][1000 genomes]
rs2623256	0.84[EUR][1000 genomes]
rs2623291	0.90[ASN][1000 genomes]
rs2959296	0.90[ASN][1000 genomes]
rs3751595	0.85[EUR][1000 genomes]
rs3794529	0.83[EUR][1000 genomes]
rs4775971	0.81[EUR][1000 genomes]
rs56221158	0.88[EUR][1000 genomes]
rs7165594	0.85[EUR][1000 genomes]
rs7167759	0.85[EUR][1000 genomes]
rs7342575	0.83[EUR][1000 genomes]
rs74015757	0.81[EUR][1000 genomes]
rs74015761	0.81[EUR][1000 genomes]
rs8036648	0.85[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv569409	chr15:52028914-52268144	Strong transcription Weak transcription Flanking Active TSS Enhancers Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
2	esv2830255	chr15:52133914-52274863	Weak transcription Flanking Active TSS Strong transcription Active TSS Enhancers ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:119 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:52139200-52156200	Weak transcription	Fetal Intestine Small	intestine
2	chr15:52139400-52156600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
3	chr15:52141600-52166800	Weak transcription	Stomach Mucosa	stomach
4	chr15:52141800-52176200	Weak transcription	Brain Cingulate Gyrus	brain
5	chr15:52145000-52156600	Weak transcription	Fetal Brain Female	brain
6	chr15:52145800-52176600	Weak transcription	Psoas Muscle	Psoas
7	chr15:52148200-52157000	Weak transcription	Cortex derived primary cultured neurospheres	brain
8	chr15:52148200-52176200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
9	chr15:52149000-52161000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
10	chr15:52149200-52156200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
11	chr15:52149400-52156400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
12	chr15:52149400-52171000	Weak transcription	Brain Angular Gyrus	brain
13	chr15:52149600-52155600	Weak transcription	HUES64 Cell Line	embryonic stem cell
14	chr15:52149600-52156800	Weak transcription	H1 Cell Line	embryonic stem cell
15	chr15:52149800-52156400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
16	chr15:52149800-52156400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
17	chr15:52149800-52156400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
18	chr15:52149800-52160600	Weak transcription	Placenta Amnion	Placenta Amnion
19	chr15:52149800-52168000	Weak transcription	Right Ventricle	heart
20	chr15:52150600-52160800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
21	chr15:52151800-52156400	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
22	chr15:52152200-52156600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
23	chr15:52152400-52170000	Weak transcription	Pancreas	Pancrea
24	chr15:52152400-52170800	Weak transcription	Rectal Smooth Muscle	rectum
25	chr15:52153200-52156800	Genic enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
26	chr15:52153200-52158400	Genic enhancers	A549	lung
27	chr15:52153200-52161200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
28	chr15:52153200-52161600	Genic enhancers	NHEK	skin
29	chr15:52153400-52155800	Weak transcription	Colonic Mucosa	Colon
30	chr15:52153400-52156600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
31	chr15:52153400-52157000	Genic enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
32	chr15:52153400-52158400	Strong transcription	Hela-S3	cervix
33	chr15:52153400-52161600	Genic enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
34	chr15:52153800-52158000	Strong transcription	GM12878-XiMat	blood
35	chr15:52153800-52178000	Weak transcription	Brain Germinal Matrix	brain
36	chr15:52154000-52156200	Weak transcription	Gastric	stomach
37	chr15:52154000-52161600	Genic enhancers	HMEC	breast
38	chr15:52154200-52156200	Weak transcription	Esophagus	oesophagus
39	chr15:52154400-52155600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
40	chr15:52154400-52159400	Weak transcription	Fetal Heart	heart
41	chr15:52154400-52162000	Weak transcription	Small Intestine	intestine
42	chr15:52154400-52165800	Strong transcription	Sigmoid Colon	Sigmoid Colon
43	chr15:52154400-52170200	Weak transcription	Fetal Brain Male	brain
44	chr15:52154800-52156600	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
45	chr15:52154800-52156600	Strong transcription	NHDF-Ad	bronchial
46	chr15:52154800-52158000	Strong transcription	NHLF	lung
47	chr15:52155000-52156200	Strong transcription	HUES6 Cell Line	embryonic stem cell
48	chr15:52155000-52156200	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
49	chr15:52155000-52156200	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
50	chr15:52155000-52156400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived

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