Variant report

Variant	rs16977372
Chromosome Location	chr15:57577513-57577514
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:57572963..57574915-chr15:57577135..57578726,2	K562	blood:
2	chr15:57576964..57581094-chr15:57584110..57586984,5	K562	blood:
3	chr15:57575333..57577796-chr15:57582092..57585036,2	K562	blood:
4	chr15:57576732..57578817-chr15:57580600..57582934,2	K562	blood:

Variant related genes	Relation type
ENSG00000140262	Chromatin interaction

Extended variants
information (count: 38 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs1045665	0.87[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10518898	0.89[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10518904	0.87[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16953323	0.83[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977242	0.83[YRI][hapmap];0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977244	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977245	1.00[EUR][1000 genomes]
rs16977253	0.83[YRI][hapmap];0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977272	0.81[YRI][hapmap];0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977276	0.81[YRI][hapmap];0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977280	0.83[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977284	0.83[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977297	0.89[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977308	0.87[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977312	0.89[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977315	0.89[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977329	1.00[EUR][1000 genomes]
rs16977330	0.89[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977333	0.89[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977341	0.88[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977352	0.89[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977353	0.87[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977354	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1867639	1.00[EUR][1000 genomes]
rs2169466	0.83[YRI][hapmap]
rs2593220	1.00[EUR][1000 genomes]
rs2615251	1.00[EUR][1000 genomes]
rs2733316	1.00[EUR][1000 genomes]
rs2733317	1.00[EUR][1000 genomes]
rs2733343	1.00[EUR][1000 genomes]
rs2733345	1.00[EUR][1000 genomes]
rs28454221	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34560099	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs935327	1.00[EUR][1000 genomes]
rs935329	1.00[EUR][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	nsv1045611	chr15:57350965-58070807	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
2	nsv833021	chr15:57495413-57751366	Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
3	nsv526342	chr15:57565859-57597280	Strong transcription Transcr. at gene 5' and 3' Genic enhancers Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:122 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:57522800-57585000	Strong transcription	Fetal Thymus	thymus
2	chr15:57537800-57598200	Weak transcription	Colonic Mucosa	Colon
3	chr15:57546000-57580600	Weak transcription	Placenta Amnion	Placenta Amnion
4	chr15:57548200-57578000	Weak transcription	Fetal Heart	heart
5	chr15:57552200-57588600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
6	chr15:57552400-57578600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr15:57553200-57585000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
8	chr15:57556200-57580600	Weak transcription	Stomach Mucosa	stomach
9	chr15:57557000-57584600	Weak transcription	Colon Smooth Muscle	Colon
10	chr15:57557600-57578000	Weak transcription	Pancreas	Pancrea
11	chr15:57557600-57588600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr15:57562600-57578000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
13	chr15:57562600-57584200	Strong transcription	Fetal Muscle Trunk	muscle
14	chr15:57562600-57584600	Strong transcription	Fetal Muscle Leg	muscle
15	chr15:57564000-57582400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
16	chr15:57564000-57583600	Strong transcription	Dnd41	blood
17	chr15:57564800-57584600	Strong transcription	Cortex derived primary cultured neurospheres	brain
18	chr15:57565000-57583400	Strong transcription	Thymus	Thymus
19	chr15:57565600-57584600	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
20	chr15:57565800-57578000	Weak transcription	Right Ventricle	heart
21	chr15:57566000-57577800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
22	chr15:57566000-57577800	Weak transcription	Brain Substantia Nigra	brain
23	chr15:57566000-57579000	Weak transcription	Brain Germinal Matrix	brain
24	chr15:57566000-57584400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
25	chr15:57566000-57591600	Weak transcription	Esophagus	oesophagus
26	chr15:57566200-57578400	Weak transcription	Spleen	Spleen
27	chr15:57566400-57577800	Weak transcription	Small Intestine	intestine
28	chr15:57566400-57578000	Weak transcription	Ovary	ovary
29	chr15:57567000-57579000	Weak transcription	Rectal Smooth Muscle	rectum
30	chr15:57567400-57577600	Weak transcription	A549	lung
31	chr15:57567800-57578600	Weak transcription	NHEK	skin
32	chr15:57568000-57578200	Weak transcription	Brain Angular Gyrus	brain
33	chr15:57568000-57578400	Weak transcription	H9 Cell Line	embryonic stem cell
34	chr15:57568000-57582600	Weak transcription	Aorta	Aorta
35	chr15:57568000-57588400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
36	chr15:57568000-57590600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
37	chr15:57568200-57577800	Weak transcription	Gastric	stomach
38	chr15:57568200-57577800	Weak transcription	HMEC	breast
39	chr15:57568200-57578000	Weak transcription	Lung	lung
40	chr15:57568200-57578400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
41	chr15:57568200-57591600	Weak transcription	Psoas Muscle	Psoas
42	chr15:57568600-57583800	Strong transcription	Fetal Intestine Large	intestine
43	chr15:57570200-57577800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
44	chr15:57571200-57580000	Strong transcription	Adipose Nuclei	Adipose
45	chr15:57571200-57580800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
46	chr15:57571400-57582200	Strong transcription	HSMM	muscle
47	chr15:57571400-57583600	Strong transcription	Liver	Liver
48	chr15:57571400-57584800	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
49	chr15:57571800-57578400	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
50	chr15:57572000-57578400	Weak transcription	Muscle Satellite Cultured Cells	--

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